Product and process for liquefaction of mucus for sputum

ABSTRACT

Disclosed are compositions and methods for decreasing the viscosity and/or cohesiveness of and/or increasing the liquefaction of excessively or abnormally viscous or cohesive mucus or sputum. The composition contains a protein or peptide containing a thioredoxin active-site in reduced state and optionally further contains a reducing system.

CROSS-REFERENCE TO RELATED APPLICATIONS

[0001] This application claims the benefit of priority under 35 U.S.C. §119(e) from each of U.S. Provisional Application Serial No. 60/409,960,filed Sep. 10, 2002 and U.S. Provisional Application Serial No.60/462,082, filed Apr. 11, 2003. The entire disclosure of each of U.S.Provisional Application Serial Nos. 60/409,960 and 60/462,082 isincorporated herein by reference.

FIELD OF THE INVENTION

[0002] This invention generally relates to the use of a protein orpeptide containing a thioredoxin active-site in reduced state to induce,enhance and/or increase the liquefaction of mucus or sputum.

BACKGROUND OF THE INVENTION

[0003] Cystic fibrosis (CF) is a common lethal genetic disease thatresults from a mutation in the gene encoding a chloride channel protein,the CF transmembrane conductance regulator. As a result of this defect,epithelia within the body are impermeable to chloride ion transport(Boucher et al., Lung 161:1-17, 1983; Welsh, Physiol Rev 67:11443-1184,1987). Although several organs are affected, including pancreas,intestine, and male genital tract, complications within the lung accountfor 95% of the morbidity and mortality (Means, M. Cystic Fibrosis: thefirst 50 years. In: Cystic Fibrosis—Current Topics Volume 1, edited byDodge J A, Brock D J H, and Widdicombe J H. Chichester: Wiley and Sons,1992, p. 217-250). In lung impaired by the disease, chloride transportinto the airway lumen leads to excessive absorption of Na+ and fluid,reducing the volume of airway surface liquid (Jiang et al., Science262:424-427, 1993). Desiccation of airway surface liquid leads to theconcentration of mucin macromolecules, which are the gel formingconstituents of mucus (Matsui et al., Cell 95:1005-1015, 1998). Theviscoelastic properties of normal mucus are dependent on theconcentration, molecular weight, and entanglements between mucinpolymers (Verdugo et al., Biorheology 20:223-230, 1983). Furtherinteraction of mucins with DNA (Potter et al., Am J Dis Child100:493-495, 1960; Lethem et al., Am Rev Respir Dis 100:493-495, 1990;Lethem et al., Eur Respir J 3:19-23, 1990) and f-actin polymers (Sheilset al., Am J Path 148:919-927, 1996; Tomkiewicz et al., DNA and actinfilament ultrastructure in cystic fibrosis sputum. In: Cilia, mucus, andmucociliary interactions, edited by Baum G L, Priel Z, Roth Y, Liron N,and Ostfeld E J. New York, N.Y.: Marcel Dekker, 1998) released fromdying inflammatory cells is responsible for the dense and viscous natureof CF sputum. The inability to clear such mucus by cough or mucociliaryclearance facilitates colonization of the lung with opportunisticpathogens.

[0004] While the etiology of CF lung disease can be attributed to thealtered Theological properties of sputum, compromised lung function israrely evident at birth. Instead, bronchiectasis and airway obstructionprogress with age of patient. This chronic lung injury results from apersistent cycle of bacterial infection and inflammatory response.Airway damage results when neutrophils recruited into the lung releasematrix degrading enzymes, such as elastase, and harmful reactive oxygenspecies (reviewed in Konstan and Berger, Pediatr Pulmonol 24:137-142,1997).

[0005] Despite some promising advances, correction of CF by gene therapyis not yet attainable. Currently, antibiotic regimens coupled with drugsthat facilitate the clearance of purulent airway secretions remain themainstay treatments for progressive airway disease. Inhalation ofpurified rhDNase (Pulmozyme; Genentech, USA), which digestsextracellular DNA present in the CF airway, is widely used as arespiratory decongestant. Such treatment is clinically effective fordiminishing sputum viscosity and stabilizing the forced expiratoryvolume (FEV) (Fuchs et al., N Engl J Med 331:637-642,1994). Otherinvestigative therapies aimed at breaking down mucin or actin polymers,including N-acetylcysteine, nacystelyn (an N-acetyl-L-cysteinederivative), and gelsolin, can also reduce sputum viscosityexperimentally, but have yet to attain clinical approval specificallyfor treatment of CF in the United States.

[0006] Therefore, there is a need in the art for improved therapeuticapproaches for the treatment of cystic fibrosis, as well as otherdiseases and conditions that are associated with abnormally orexcessively viscous or cohesive mucus or sputum.

SUMMARY OF THE INVENTION

[0007] One embodiment of the present invention relates to a method toincrease the liquefaction of mucus or sputum in a patient that hasexcessively viscous or cohesive mucus or sputum. The method includes thestep of contacting the mucus or sputum of the patient with a compositioncomprising a protein or peptide containing a thioredoxin active-site inreduced state effective to increase the liquefaction of the mucus orsputum as compared to prior to the step of contacting. In one aspect ofthis embodiment, the patient has a lung disease in which abnormal orexcessive viscosity or cohesiveness of mucus or sputum is a symptom orcause of the disease including, but not limited to, cystic fibrosis.

[0008] In one aspect, the step of contacting the mucus or sputum of thepatient with the composition is performed by introducing the compositionto the patient by a route selected from the group consisting of nasal,intratracheal, bronchial, direct installation into the lung and inhaled.In one aspect, the mucus or sputum to be contacted is located in therespiratory tract, the gastrointestinal tract or the reproductive tractof the patient. In another aspect, the composition is administered tothe patient in a pharmaceutically acceptable carrier. Preferably, aliquid phase of a total volume of a sample of mucus or sputum from thepatient shows a statistically significant increase after administrationof the composition.

[0009] In one aspect of this embodiment, the protein or peptide isadministered to the patient in an amount that is between about 1.5mmoles/kg weight of the patient and about 150 mmoles/kg weight of thepatient. In another aspect, the protein has a half-life in the patientof between about 5 minutes and about 24 hours. In one aspect, thethioredoxin active-site comprises the amino acid sequence C-X-X-C,wherein C residues are in reduced state, and wherein X residues are anyamino acid residue. In another aspect, the thioredoxin active-sitecomprises the amino acid sequence X-C-X-X-C-X, wherein C residues are inreduced state, and wherein X residues are any amino acid residue. Inanother aspect, the thioredoxin active-site comprises the amino acidsequence X-C-G-P-C-X (SEQ ID NO:2), wherein C residues are in reducedstate, and wherein X residues are any amino acid residue. In yet anotheraspect, the thioredoxin active-site comprises the amino acid sequenceW-C-G-P-C-K (SEQ ID NO:3), wherein C residues are in reduced state. Inanother aspect, the protein comprises thioredoxin selected from thegroup consisting of prokaryotic thioredoxin, yeast thioredoxin, plantthioredoxin, and mammalian thioredoxin. In a preferred aspect, theprotein comprises human thioredoxin.

[0010] In one aspect of the invention, the composition further comprisesnicotinamide-adenine dinucleotide phosphate (reduced form) (NADPH) forreducing the thioredoxin active site of the protein. In a furtheraspect, the composition comprises thioredoxin reductase.

[0011] Yet another embodiment of the invention relates to a compositionfor use in the liquefaction of mucus or sputum, comprising a protein orpeptide containing a thioredoxin active-site in reduced state and atleast one additional agent for treatment of excessively viscous orcohesive mucus or sputum. In one aspect, the thioredoxin active-sitecomprises the amino acid sequence X-C-X-X-C-X, wherein C residues are inreduced state, and wherein the X residues are any amino acid residue. Inanother aspect, the thioredoxin active-site comprises the amino acidsequence X-C-G-P-C-X (SEQ ID NO:2), wherein C residues are in reducedstate, and wherein the X residues are any amino acid residue. In yetanother aspect, the thioredoxin active-site comprises the amino acidsequence W-C-G-P-C-K (SEQ ID NO:3), wherein C residues are in reducedstate. In yet another aspect, the protein comprises thioredoxin selectedfrom a group consisting of prokaryotic thioredoxin, yeast thioredoxin,plant thioredoxin, and mammalian thioredoxin. In one aspect, the proteincomprises human thioredoxin.

[0012] The composition can, in a further aspect, includenicotinamide-adenine dinucleotide phosphate (reduced form) (NADPH). In afurther aspect, the composition further comprises thioredoxin reductase.

[0013] Yet another embodiment of the present invention relates to amethod to increase the liquefaction of mucus or sputum in a patient thathas excessively viscous or cohesive mucus or sputum. The method includesthe step of contacting the mucus or sputum in the respiratory tract ofthe patient with a composition comprising a protein comprising the aminoacid sequence X-C-X-X-C-X, wherein C residues are in reduced state,wherein the contact of composition increases the volume of the liquidphase in a sample of mucus or sputum from the patient as compared toprior to contact with the composition.

BRIEF DESCRIPTION OF THE DRAWINGS OF THE INVENTION

[0014]FIG. 1A is a line graph showing that liquefaction of CF sputum byexposure to the Trx reducing system is dose-dependent.

[0015]FIG. 1B is a line graph showing that liquefaction of CF sputum byTrx is dependent upon NADPH.

[0016]FIG. 2 is a line graph showing an assessment of compaction assayreproducibility.

[0017]FIG. 3A is a graph showing that the Trx reducing system (Trx+0.1μM TR+2 mM NADPH) is more potent in sputum liquefaction than aglutathione reducing system (GSH+0.1 μM Gr+2 mM NADPH).

[0018]FIG. 3B is a graph showing that the Trx reducing system (Trx+0.1μM TR+2 mM NADPH) is more potent in sputum liquefaction thanN-acetylcysteine (NAC).

[0019]FIG. 4A shows the effect of Trx dose on viscoelasticity (log G*)of CF sputum in vitro.

[0020]FIG. 4B shows the effect of NADPH dose on viscoelasticity (log G*)of CF sputum in vitro.

[0021]FIG. 5 is a digitized image showing the glycoprotein mass profileof CF sputum after diluent or Trx exposure.

[0022]FIG. 6 is a graph showing that Trx exposure increases thesolubility of DNA present in CF sputum.

DETAILED DESCRIPTION OF THE INVENTION

[0023] The present invention generally relates to the use of a proteinor peptide containing a thioredoxin active-site in reduced state toinduce, enhance and/or increase the liquefaction of mucus or sputum.More specifically, the present inventor has discovered that thioredoxincan decrease the viscosity and/or cohesivity of sputum or mucus andthereby is an effective agent for the liquefaction of sputum or mucus.Accordingly, native thioredoxin, proteins or peptides containing theactive-site of thioredoxin in reduced state, or nucleic acid moleculesencoding such proteins, can be used alone or in a composition to treat avariety of conditions or diseases associated with undesirable mucus ortenacious and viscous sputum. For example, respiratory diseases such ascystic fibrosis are particularly amenable to treatment using the productand process of the invention. Therefore, the present invention relatesto the use of proteins containing the active-site of thioredoxin inreduced state for the increased liquefaction of mucus or sputum,particularly mucus or sputum that is abnormally or excessively viscousand/or cohesive. The proteins are administered to a patient that issuffering from or affected by such abnormal or excessive mucus or sputumin a manner and amount effective to increase the liquefaction of themucus or sputum and preferably, to provide a therapeutic benefit to thepatient.

[0024] Thioredoxin and proteins containing the thioredoxin active sitehave advantages over other reducing agents for use in the treatment ofconditions such as cystic fibrosis. For example, unlike other reducingagents (e.g., N-acetylcysteine (NAC), Nacystelyn (NAL), dithiothreitol(DTT)), thioredoxin can be cyclically re-reduced to its effective(reduced) form. In addition, auto-oxidation (e.g., producing superoxide,hydrogen peroxide, hydroxyl radical and other toxic oxygen metabolites)of thioredoxin occurs at a low level as compared with other reducingagents such as NAC, NAL and DTT. Furthermore, thioredoxin is a naturallyoccurring compound which normally exists in the extracellular space, andtherefore, introduction of thioredoxin into the airway should not inducean immune response and should be non-irritating. Thioredoxin is also notglycosylated, and as such, administration of the protein in natural orrecombinant form should not induce an innate immune response. Perhapseven more significantly, thioredoxin, in contrast to other reducingagents, maintains the treated mucus or sputum in the liquid state. NACand DTT, for example, become “spent” or oxidized over time and at thisstage, liquified sputum or mucus can revert back to the more viscous“gel” state. In contrast, the liquefaction produced by thioredoxinappears to endure for hours, most likely due to its cyclic re-reductionby its reducing system. Finally, thioredoxin is more potent than otherreducing agents and therefore, it can be used at significantly lowerdoses than other agents to achieve a beneficial effect.

[0025] In addition to the above-described advantages, thioredoxin hasother benefits which increase its usefulness in disease conditions. Forexample, it is known that thioredoxin induces MnSOD (e.g., see U.S. Pat.No. 5,985,261 to White et al., incorporated herein by reference in itsentirety) which is predicted to decrease the toxicity of certainbacterial toxins (including, but not limited to, endotoxin frombacterial cell walls of gram-negative bacteria, pyocyanin fromPseudomonas aeruginosa, and others) in disease sputum (e.g., cysticfibrosis sputum). In addition, thioredoxin has anti-inflammatoryproperties which can enhance the overall treatment of a respiratorycondition.

[0026] Thioredoxin (Trx) is a protein disulfide reductase that catalyzesnumerous thiol-dependent cellular reductive processes. Thioredoxin (Trx)contains two redox-active cysteines which are highly conserved acrossspecies. In their oxidized form, these cysteines form a disulfide bridgethat protrudes from the three dimensional structure of the protein(Holmgren, Annu Rev Biochem 54:237-271, 1985). Reduction of this activecenter by the NADPH-dependent thioredoxin reductase (TR) enzyme allowsTrx to function as an electron carrier with dithiol/disulfide exchangecapability (Oblong et al., Biochemistry 32:7271-7277, 1993). Proteindisulfides are a preferred substrate for Trx-mediated reducing action.The persistent and viscous nature of airway secretions in cysticfibrosis disease leads to airway obstruction, opportunistic infection,and deterioration of lung function. Recognizing that respiratory mucinscontain several cysteine domains that are believed to play an essentialrole in polymerization (Bell et al., Biochem J 357:203-209, 2001; Askeret al., Biochem J 333:381-387,1998), the present inventors ought todetermine whether Trx could serve as an effective mucolytic by reductionof mucin disulfides.

[0027] In the experiments discussed herein, the present inventorexamined the effects of the Trx reducing system (thioredoxin,thioredoxin reductase, and NADPH) on the physical and rheologicproperties of CF sputum in vitro. Sputum obtained from CF patients wastreated with TRX and its reducing system [0.1 μM Thioredoxin reductase(TR)+2 mM NADPH] and liquid phase:gel phase ratio (percent liquid phase)assessed by compaction assay. Exposure to low Trx concentrations (1 μM)caused significant increases in the percentage of liquid phase ofsputum. Maximal increases in percent liquid phase occurred with 30 μMTrx. Additional measurements revealed that sputum liquefaction by theTrx reducing system is dependent on NADPH concentration. The relativepotency of the Trx reducing system also was compared with otherdisulfide reducing agents. In contrast with Trx, glutathione andN-acetylcysteine were ineffective in liquefying sputum when used atconcentrations below 1 mM. Sputum viscoelasticity, measured by magneticmicrorheometry, was also significantly diminished following 20 minutetreatment with 3, 10, or 30 μM Trx. Similarly, this reduction inviscoelasticity was also dependent upon NADPH concentration. Furtherexperimentation has indicated that Trx treatment increases thesolubility of high molecular weight glycoproteins, and causesredistribution of extracellular DNA into the liquid phase of sputum. Theexperiments described herein demonstrate that in vitro treatment withcatalytic amounts of Trx and its reducing system can liquefy anddecrease the viscoelasticity of purulent CF sputum. The increasedsolubility of high molecular weight glycoproteins present in Trx-treatedsputum indicates that mucin macromolecules may be the substrates reducedby Trx during the mucolytic process.

[0028] Mucus obstruction of the airways can cause significant morbidityand mortality in patients with CF. The present inventor has demonstratedthat the viscoelastic properties facilitating the persistence of thesesecretions within airways are markedly diminished by Trx. Thisconclusion is supported by two lines of experimental evidence. First,compaction assay results indicate that large amounts of liquid arereleased from the gel matrix of CF sputum during incubation with Trx.Occurring simultaneously with this release were decreases in the volumeof solid matter, indicating that the gel forming constituents of sputumwere being solubilized. This liquefaction of CF sputum could often beobserved grossly in CF sputum samples during the incubation period, andtherefore, is not an artifact of centrifugal disruption. The liberationof liquid by Trx is expected to have important therapeutic implicationssince restoration of water volume at airway surfaces can restore themucociliary transport ability of CF epithelium (Jiang et al., Science262:424-427, 1993). Second, magnetic microrheometry measurements providedirect evidence that sputum viscoelasticity declines as a result ofreduction of sputum components by Trx.

[0029] CF sputum is a non-newtonian fluid exhibiting both liquid andsolid characteristics. Polymers when present in solutions at lowconcentration are able to rotate freely. When polymers becomeconcentrated or cross-linked to such a degree that their rotation ishindered, a solution has reached a transition phase called thepercolation threshold (Forgacs, J Cell Sci 108:2131-2143, 1995). At thepercolation threshold the solution begins to acquire characteristics ofa solid, and the elastic moduli continue to increase as morecross-polymer interactions are added, until each filament in the sampleis incorporated into the matrix. Biochemical analyses have revealed thatmucins MUC5AC and MUC5B, secreted by cells lining the respiratory tract,are the major gel forming polymers components of airway mucus (Hovenberget al., Glycoconj J 13:839-847, 1996; Thornton et al., Biochem J316:967-975, 1996; Thornton et al., J Biol Chem 272:9561-9566, 1997).Cysteine domains present on these mucins contribute to polymerformation, and possibly interaction with neighboring mucin chains, bydisulfide bond formation (Bell et al., Biochem J357:203-209, 2001; Askeret al., Biochem J 333:381-387, 1998). Since disulfide bonds on proteinsare the preferred substrates for Trx enzymatic activity, it washypothesized by the inventor that mucin polymers were targets forreduction during the liquefaction of sputum by Trx. This hypothesis wassupported by PAS staining which revealed changes in the solubility ofhigh molecular weight glycoforms in Trx treated sputum. Detection ofgreater concentrations of glycoproteins in the liquid phase ofTrx-exposed sputum was further indicated by a more intense yellow colorand had greater opacity than liquid phase derived from diluent-treatedsamples. The enhanced electrophoretic mobility of PAS-detectableglycoproteins in Trx-exposed sputum also suggests that thesemacromolecules may decrease in size during enzymatic reduction. Findingsfrom this electrophoretic analysis are in agreement with compactionassay measurements by demonstrating that glycoprotein release intoliquid phase coincides with the decrease in mass of the gel matrixduring exposure to Trx.

[0030] Neutrophil lysis within the airways of diseased CF lungs resultsin the deposition of extracellular DNA into airway secretions (Lethem etal., Eur Respir J 3:19-23, 1990). By non-covalent interactions, this DNAbecomes entangled within mucin glycoproteins, increasing mucus gelviscoelasticity (Sachdev et al., Chest 81:41S-43S, 1982). In theexperiments described herein, the present inventor found that DNApresent in sputum becomes increasingly soluble following Trx treatment.A logical explanation is that Trx activity causes structural changeswithin the gel matrix which are sufficient to relieve entanglementinteractions between DNA and the affected macromolecules. It isuncertain what the relative contribution of this increased DNAsolubility has toward viscoelastic changes observed during exposure ofCF sputum to Trx. Nonetheless, from a clinical standpoint, removal ofDNA from the insoluble gel phase of sputum could render it moresusceptible to DNase activity during such treatment in CF. Therefore,the method of the invention has a strong potential for synergy withother existing “state of the art” therapies for CF.

[0031] In studies comparing the sputum liquefying abilities of otherthiol reducing agents, Trx demonstrated greater efficacy than theglutathione (GSH; reduced glutathione) reducing system. Since Trx hastwo redox active cysteine residues (dithiol), whereas GSH contains onlyone (monthiol), Trx may be more efficient in reduction of disulfidebonds in the gel-forming constituents of CF sputum. With regard tonon-recycling mucolytic drugs, DTT was more effective on an equimolarbasis than NAC (or Mucomyst©) solutions (FIGS. 2 and 3; and data notshown). Efficacy of these compounds may again be dependent on the numberof redox active cysteine residues, DTT having two, NAC only one. On thebasis of these compaction assay measurements, enzymatic disulfide bondreduction using proteins, peptides or other compounds with dual redoxactive cysteines is expected to be a potent mucolytic strategy.

[0032] In summary, Trx increases the liquid fraction and diminishes theviscoelasticity of CF sputum. Increases in glycoprotein solubility occurduring treatment of sputum with Trx, and this may be the mechanism forthese rheological changes. The development of mucus reducing systemsthat stimulate release of liquid, and reduce the viscosity of airwaysecretions, is expected to have therapeutic potential for CF, as well asfor the treatment of excessive or abnormal mucus viscosity and/orcohesiveness that may be associated with other respiratory conditions(e.g., chronic or acute bronchitis; bronchiectasis; acute tracheitis;acute or chronic sinusitis; atelectasis resulting from acute or chronicmucus plugging of the airways; bronchiolitis) or with variousgastrointestinal or reproductive disorders associated with orexacerbated by excessive or abnormal mucus viscosity and/or cohesiveness(e.g., acute, subacute or chronic bowel obstruction due to mucusinspissation; infertility due to obstruction of vital reproductivestructures). Since Trx is a native protein which lacks glycosylation andpost-translational modification, and normally appears at low levelwithin extracellular space, its chronic administration could betolerated well by the immune system.

[0033] Accordingly, one embodiment of the present invention relates to amethod to increase the liquefaction of mucus or sputum in a patient thathas excessively viscous or cohesive mucus or sputum. The method includesthe step of contacting the mucus or sputum of the patient with acomposition comprising a protein or peptide containing a thioredoxinactive-site in reduced state. The protein is effective to increase theliquefaction of the mucus or sputum as compared to prior to the step ofcontacting.

[0034] According to the present invention, the term “mucus” generallyrefers to a usually clear viscid fluid that is secreted by mucousmembranes in various tissues of the body, including by the respiratory,gastrointestinal, and reproductive tracts. Mucus moistens, lubricatesand protects the tissues from which it is secreted. It comprises mucinmacromolecules, which are the gel forming constituents of mucus. Theviscoelastic properties of normal mucus are dependent on theconcentration, molecular weight, and entanglements between mucinpolymers. The term “sputum” generally refers to a mixture of saliva anddischarge from the respiratory passages, including mucus. Sputum istypically an expectorated mixture of saliva and mucus (and otherdischarge from the respiratory tissues). Therefore, mucus is a primarycomponent of sputum, and as such, the presence of excessively viscousmucus in sputum results in a sputum which is itself excessively viscous.The term “liquefaction” refers to the act of becoming liquid. Therefore,an increase in the liquefaction of mucus or sputum refers to theincrease in liquid phase or liquid state of mucus or sputum, as comparedto a more solid or viscous phase.

[0035] The general functions of mucus and sputum in the body requirethat the mucus (and thus the mucus component of the sputum) haveviscoelastic properties. In an individual with normal mucus and sputum(i.e., a healthy individual, or more particularly, an individual whodoes not suffer from symptoms or a condition caused or exacerbated bythe viscosity or cohesiveness of mucus or sputum), the viscoelasticityis dependent on the concentration, molecular weight, and entanglementsbetween mucin polymers (Verdugo et al., Biorheology 20:223-230, 1983).When mucins in the mucus interact with DNA (Potter et al., Am J DisChild 100:493-495, 1960; Lethem et al., Am Rev Respir Dis 100:493-495,1990; Lethem et al., Eur Respir J 3:19-23, 1990) and f-actin polymers(Sheils et al., Am J Path 148:919-927, 1996; Tomkiewicz et al., DNA andactin filament ultrastructure in cystic fibrosis sputum. In: Cilia,mucus, and mucociliary interactions, edited by Baum G L, Priel Z, RothY, Liron N, and Ostfeld E J. New York, N.Y.: Marcel Dekker, 1998)released from dying inflammatory cells, the mucus (and thus sputum)becomes much more dense and viscous, such as in CF sputum. The inabilityto clear such mucus by cough or mucociliary clearance facilitatescolonization of the lung with opportunistic pathogens. Therefore,abnormally or excessively viscous and/or cohesive mucus is characterizedas mucus that is measurably or detectably more viscous or cohesive thanmucus from a normal or healthy patient (preferably an age andsex-matched patient), and/or as mucus which, by virtue of its level ofviscosity and/or cohesiveness, causes or contributes to at least onesymptom in a patient that causes discomfort or pain to the patient, orthat causes or exacerbates a condition or disease. In other words,abnormally or excessively viscous and/or cohesive sputum is a deviationfrom normal mucus or sputum wherein it is desirable to treat the patientto provide some relief from the condition or other therapeutic benefit.

[0036] The method and composition of the present invention can be usedto treat any patient in which it is desirable to increase theliquefaction of mucus or sputum. In particular, patients that havecertain lung, sinus, nasal, gastrointestinal, or reproductive diseasesor conditions can benefit from treatment using the method of the presentinvention. The present invention is most useful for ameliorating orreducing at least one symptom of a condition or disease that is causedby or exacerbated by abnormal or excessive viscosity and/or cohesivenessof the mucus or sputum, which of course can include the lung-associateddisease, cystic fibrosis. Other diseases may, at least some of the time,be associated with abnormal or excessive viscosity and/or cohesivenessof the mucus or sputum, and when such a symptom occurs, the method ofthe present invention can be used to increase liquefaction of the mucusor sputum and provide at least some relief or therapeutic benefit to thepatient. Examples of such diseases include, but are not limited to:cystic fibrosis; chronic or acute bronchitis; bronchiectasis (non-CF andCF bronchiectasis); acute tracheitis (bacterial, viral, mycoplasmal orcaused by other organisms); acute or chronic sinusitis; atelectasis(lung or lobar collapse) resulting from acute or chronic mucus pluggingof the airways (sometimes seen in a variety of diseases such as asthma);bronchiolitis (viral or other); acute, subacute or chronic bowelobstruction due to mucus inspissation including, but not limited tomeconium ileus or meconium ileus equivalent in CF or similar disorders;and infertility due to obstruction of (but not limited to) the cervix,seminal ducts or other vital reproductive structures. In addition, thecomposition and method of the present invention may be useful forreducing symptoms associated with excessive viscosity and/orcohesiveness of the mucus or sputum in patients with a variety ofrespiratory infections, including both viral and bacterial infections.

[0037] As such, a therapeutic benefit is not necessarily a cure for aparticular disease or condition, but rather, preferably encompasses aresult which most typically includes alleviation of the disease orcondition, elimination of the disease or condition, reduction orelimination of a symptom associated with the disease or condition,prevention or alleviation of a secondary disease or condition resultingfrom the occurrence of a primary disease or condition (e.g., infectiousdisease caused by opportunistic pathogenic microorganisms that takeadvantage of the excessively viscous mucus in the respiratory tract),and/or prevention of the disease or condition, or a symptom associatedwith the disease or condition. As used herein, the phrase “protectedfrom a disease” refers to reducing the symptoms of the disease;palliative therapy (relieving or soothing a symptom of the diseasewithout effecting a cure); reducing the occurrence of the disease,and/or reducing the severity of the disease. Protecting a patient canrefer to the ability of a composition of the present invention, whenadministered to a patient, to prevent a disease from occurring and/or tocure or to alleviate disease at least one symptom, sign or cause of thedisease or condition. As such, to protect a patient from a diseaseincludes both preventing disease occurrence (prophylactic treatment) andtreating a patient that has a disease (therapeutic treatment). Inparticular, protecting a patient from a disease is accomplished byincreasing the liquefaction of mucus or sputum in the patient bycontacting the mucus or sputum with a protein or peptide comprising athioredoxin active site in reduced state such that a beneficial effectis obtained. A beneficial effect can easily be assessed by one ofordinary skill in the art and/or by a trained clinician who is treatingthe patient. The term “disease” refers to any deviation from the normalhealth of a patient and includes a state when disease symptoms arepresent, as well as conditions in which a deviation (e.g., infection,gene mutation, genetic defect, etc.) has occurred, but symptoms are notyet manifested.

[0038] Contact of the mucus and/or sputum of a patient with the proteinor peptide comprising a thioredoxin active site in reduced state (orcomposition comprising such a protein) is intended to result inincreased liquefaction of the mucus or sputum as compared to prior tocontact with the composition. According to the present invention, anincrease in liquefaction of mucus or sputum can be any measurable ordetectable increase in the level of liquefaction of mucus or sputum ascompared to a prior level of liquefaction, and is preferably astatistically significant increase (i.e., differences in measured levelof liquefaction between the patient sample and a baseline control arestatistically significant with a degree of confidence of at leastp<0.05). Typically, the “baseline control” is a patient sample prior tothe administration of the treatment, since normal, healthy individualsgenerally cannot produce a quantity of sputum sufficient to serve as acontrol, although sputum from a normal, healthy individual is notexcluded as a baseline control. Liquefaction of mucus or sputum can bemeasured using any suitable technique known in the art, including, butnot limited to, compaction assays as described in the Examples section.In such an assay, the amount of mucus or sputum in a solid phase (gel)versus aqueous phase (liquid) is measured. In other aspects of theinvention, the relative viscosity or cohesiveness of mucus or sputum canbe measured using other parameters or indicators including, but notlimited to, viscoelasticity (measured, for example, by magneticmicrorheometry), glycoprotein content, or DNA content. In one aspect ofthe invention, the level of liquefaction is described as the amount of agiven mucus or sputum sample that is in an aqueous (liquid) phase as apercentage of the total volume of the mucus or sputum sample. In apatient with cystic fibrosis, for example, the level of liquefaction ofmucus or sputum can be as low as less than 10% or even less than 5% ofthe total volume. Preferably, contact of a protein or composition of theinvention with the mucus or sputum results in a change in theliquefaction of the mucus or sputum of at least about such that at leastabout 15% of the total volume is in liquid phase, and more preferably,at least about 20% of the total volume is in liquid phase, and morepreferably, at least about 25% of the total volume is in liquid phase,and more preferably, at least about 30% of the total volume is in liquidphase, and more preferably, at least about 35% of the total volume is inliquid phase, and more preferably, at least about 40% of the totalvolume is in liquid phase, and more preferably, at least about 45% ofthe total volume is in liquid phase, and more preferably, at least about50% of the total volume is in liquid phase or until the blockage orinhibition of function caused by the mucus has cleared (e.g., until thepatient airways are cleared sufficiently to begin expectorating thefluid). In general, it is preferred that the liquefaction of the sputumor mucus in increased in small, gradual increments until the airway orother blocked passage (e.g., in the gastrointestinal or reproductivetract) is cleared, but without excessively liquefying the sputum.Excessive liquefaction of the mucus or sputum is not desired, as it canbe detrimental to the patient (e.g., liquefied sputum could flowbackward and flood the small airways with an infected thin liquid beforethe sputum can be cleared by the patient). Preferably, the contact of aprotein, peptide or composition of the invention with mucus or sputumproduces at least about a 1% increase in the liquefaction of the mucusor sputum by volume as compared to prior to the treatment, morepreferably, at least about a 2% increase, and so on, in increments of1%, until the patient airways or other clogged passages are cleared.

[0039] In one aspect, the therapy is conducted in conjunction withmethods to clear the thinned material from the affected tissue(respiratory tract, gastrointestinal tract, reproductive tract) of thepatient. For example, in the case of the respiratory system, one can usethe method of the present invention in conjunction with posturaldrainage, huff coughing and other respiratory exercises, or any othersuitable method for expectorating the liquefied mucus or sputum.

[0040] According to the present invention, the mucus or sputum in thepatient to be treated is contacted with a protein (or compositioncomprising the protein) that contains a thioredoxin active-site inreduced state. The protein is effective to reduce the viscosity andcohesivity of sputum or mucus and/or to increase the liquefaction ofsputum or mucus as compared to prior to the step of contacting. Asdescribed previously, thioredoxin is a protein disulfide reductase foundin most organisms which participates in many thiol-dependent cellularreductive processes. In humans, thioredoxin is also referred to as adultT cell leukemia-derived factor (ADF). Intracellularly, most of thisubiquitous low molecular weight (11,700) protein remains reduced.Reduced or oxidized thioredoxin may be able to enter intact cells orabsorb to the cell membrane, where a small amount is graduallyinternalized over time. It has two vicinal cysteine residues at theactive-site which in the oxidized protein form a disulfide bridgelocated in a protrusion from the protein's three dimensional structure.The flavoprotein thioredoxin reductase catalyzes the NADPH-dependentreduction of this disulfide. Small increases in thioredoxin can causeprofound changes in sulfhydryl-disulfide redox status in proteins.

[0041] In addition to its ability to effect the reduction of cellularproteins, it is recognized that thioredoxin can act directly as anantioxidant (e.g. by preventing oxidation of an oxidizable substrate byscavenging reactive oxygen species) although, unlike other thiols,thioredoxin does not generally contribute to the oxidative stress in acell by autooxidizing (e.g. generating superoxide radicals throughautooxidation). U.S. Pat. No. 5,985,261 to White et al., supra, showedthat thioredoxin directly induces the production of MnSOD and that suchinduction is effected by thioredoxin in reduced state.

[0042] A “thioredoxin active-site” of the present invention comprisesthe amino acid sequence C-X-X-C. As used herein, amino acid residuesdenoted “C” are cysteine residues and amino acid residues denoted “X”can be any amino acid residue, and in particular, any of the standard 20amino acid residues. Such a thioredoxin active-site of the presentinvention preferably comprises the amino acid sequence C-G-P-C (SEQ IDNO:1). A thioredoxin active-site can further comprise the amino acidsequence X-C-X-X-C-X. Preferably, a thioredoxin active-site of thepresent invention comprises the amino acid sequence X-C-G-P-C-X (SEQ IDNO:2), wherein such amino acid residue denoted “G” is a glycine residue,and wherein such amino acid residue denoted “P” is a proline residue.More preferably, a thioredoxin active-site of the present inventioncomprises the amino acid sequence W-C-G-P-C-K (SEQ ID NO:3), whereinsuch amino acid residue denoted “W” is a tryptophan residue, and whereinsuch amino acid residue denoted “K” is a lysine residue.

[0043] In one aspect of the invention, the protein containing anthioredoxin active site is a full-length thioredoxin protein or anyfragment thereof containing a thioredoxin active site as describedstructurally and functionally above. Preferred thioredoxin proteinsinclude prokaryotic thioredoxin, yeast thioredoxin, plant thioredoxin,and mammalian thioredoxin, with human thioredoxin being particularlypreferred. The nucleic acid and amino acid sequences of thioredoxinsfrom a variety of organisms are well known in the art and are intendedto be encompassed by the present invention. For example, SEQ ID NOs:4-15represent the amino acid sequences for thioredoxin from Pseudomonassyringae (SEQ ID NO:4), Porphyromonas gingivalis (SEQ ID NO:5), Listeriamonocytogenes (SEQ ID NO:6), Saccharomyces cerevisiae (SEQ ID NO:7),Gallus gallus (SEQ ID NO:8), Mus musculus (SEQ ID NO:9), Rattusnorvegicus (SEQ ID NO:10), Bos taurus (SEQ ID NO:11), Homo sapiens (SEQID NO:12), Arabidopsis thaliana (SEQ ID NO:13), Zea mays (SEQ ID NO:14),and Oryza sativa (SEQ ID NO:15). Referring to each of these sequences,the X-C-G-P-C-X (SEQ ID NO:2) motif (which includes the CGPC motif ofSEQ ID NO:1) can be found as follows: SEQ ID NO:4 (positions 33-38), SEQID NO:5 (positions 28-33), SEQ ID NO:6 (positions 27-32), SEQ ID NO:7(positions 29-34), SEQ ID NO:8 (positions 31-36), SEQ ID NO:9 (positions31-36), SEQ ID NO:10 (positions 31-36), SEQ ID NO:11 (positions 31-36),SEQ ID NO:12 (positions 31-36), SEQ ID NO:13 (positions 59-64), SEQ IDNO:14 (positions 88-93) and SEQ ID NO:15 (positions 94-99). Moreover,the three-dimensional structure of several thioredoxin proteins has beenresolved, including human and bacterial thioredoxins. Therefore, thestructure and active site of thioredoxins from multiple organisms iswell known in the art and one of skill in the art would be able toreadily identify and produce fragments or homologues of full lengththioredoxins that can be used in the present invention.

[0044] The phrase “in reduced state” specifically describes the state ofthe cysteine residues in the active-site of a protein or peptide of thepresent invention. In reduced state, such cysteine residues form adithiol (i.e. two free sulfhydryl groups, —SH). In contrast, in oxidizedform, such cysteine residues form an intramolecular disulfide bridge;such a molecule can be referred to as cystine. In reduced state, athioredoxin active-site is capable of participating in redox reactionsthrough the reversible oxidation of its active-site dithiol to adisulfide, and catalyzes dithiol-disulfide exchange reactions.

[0045] As used herein, a protein of the present invention containing athioredoxin active site can be a thioredoxin active site per se or athioredoxin active site joined to other amino acids by glycosidiclinkages. Thus, the minimal size of a protein or peptide of the presentinvention is from about 4 to about 6 amino acids in length, withpreferred sizes depending on whether a full-length, fusion, multivalent,or merely functional portions of such a protein is desired. Preferably,the length of a protein or peptide of the present invention extends fromabout 4 to about 100 amino acid residues or more, with peptides of anyinterim length, in whole integers (i.e., 4, 5, 6, 7 . . . 99, 100, 101 .. . ), being specifically envisioned. In a further preferred embodiment,a protein of the present invention can be a full-length protein or anyhomologue of such a protein. As used herein, the term “homologue” isused to refer to a protein or peptide which differs from a naturallyoccurring protein or peptide (i.e., the “prototype” or “wild-type”protein) by modifications to the naturally occurring protein or peptide,but which maintains the basic protein and side chain structure of thenaturally occurring form, and/or which maintains a basicthree-dimensional structure of at least a biologically active portion(e.g., the thioredoxin active site) of the native protein. Such changesinclude, but are not limited to: changes in one or a few amino acid sidechains; changes one or a few amino acids, including deletions (e.g., atruncated version of the protein or peptide (fragment)), insertionsand/or substitutions; changes in stereochemistry of one or a few atoms;and/or minor derivatizations, including but not limited to: methylation,glycosylation, phosphorylation, acetylation, myristoylation,prenylation, palmitation, amidation and/or addition ofglycosylphosphatidyl inositol. According to the present invention, anyprotein or peptide useful in the present invention, including homologuesof natural thioredoxin proteins, have a thioredoxin active-site suchthat, in reduced state, the protein or peptide is capable ofparticipating in redox reactions through the reversible oxidation of itsactive-site dithiol to a disulfide, of catalyzing dithiol-disulfideexchange reactions, and/or of decreasing the viscosity or cohesivity ofmucus or sputum or increasing the liquefaction of mucus or sputum. Asused herein, a protein or peptide containing a thioredoxin active-sitecan have characteristics similar to thioredoxin, and preferably, isthioredoxin selected from the group of prokaryotic thioredoxin, yeastthioredoxin, plant thioredoxin, or mammalian thioredoxin. In aparticularly preferred embodiment, the protein is human thioredoxin.

[0046] Homologues can be the result of natural allelic variation ornatural mutation. A naturally occurring allelic variant of a nucleicacid encoding a protein is a gene that occurs at essentially the samelocus (or loci) in the genome as the gene which encodes such protein,but which, due to natural variations caused by, for example, mutation orrecombination, has a similar but not identical sequence. Allelicvariants typically encode proteins having similar activity to that ofthe protein encoded by the gene to which they are being compared. Oneclass of allelic variants can encode the same protein but have differentnucleic acid sequences due to the degeneracy of the genetic code.Allelic variants can also comprise alterations in the 5′ or 3′untranslated regions of the gene (e.g., in regulatory control regions).Allelic variants are well known to those skilled in the art.

[0047] Homologues can be produced using techniques known in the art forthe production of proteins including, but not limited to, directmodifications to the isolated, naturally occurring protein, directprotein synthesis, or modifications to the nucleic acid sequenceencoding the protein using, for example, classic or recombinant DNAtechniques to effect random or targeted mutagenesis.

[0048] Modifications in homologues, as compared to the wild-typeprotein, either agonize, antagonize, or do not substantially change, thebasic biological activity of the homologue as compared to the naturallyoccurring protein. In general, the biological activity or biologicalaction of a protein refers to any function(s) exhibited or performed bythe protein that is ascribed to the naturally occurring form of theprotein as measured or observed in vivo (i.e., in the naturalphysiological environment of the protein) or in vitro (i.e., underlaboratory conditions). Modifications of a protein, such as in ahomologue or mimetic (discussed below), may result in proteins havingthe same biological activity as the naturally occurring protein, or inproteins having decreased or increased biological activity as comparedto the naturally occurring protein. Modifications which result in adecrease in protein expression or a decrease in the activity of theprotein, can be referred to as inactivation (complete or partial),down-regulation, or decreased action of a protein. Similarly,modifications which result in an increase in protein expression or anincrease in the activity of the protein, can be referred to asamplification, overproduction, activation, enhancement, up-regulation orincreased action of a protein.

[0049] In one embodiment, homologues of a thioredoxin protein, includingpeptide and non-peptide homologues of thioredoxin, can be products ofdrug design or selection and can be produced using various methods knownin the art. Such homologues can be referred to as mimetics. A mimeticrefers to any peptide or non-peptide compound that is able to mimic thebiological action of a naturally occurring peptide, often because themimetic has a basic structure that mimics the basic structure of thenaturally occurring peptide and/or has the salient biological propertiesof the naturally occurring peptide. Mimetics can include, but are notlimited to: peptides that have substantial modifications from theprototype such as no side chain similarity with the naturally occurringpeptide (such modifications, for example, may decrease itssusceptibility to degradation); anti-idiotypic and/or catalyticantibodies, or fragments thereof; non-proteinaceous portions of anisolated protein (e.g., carbohydrate structures); or synthetic ornatural organic molecules, including nucleic acids and drugs identifiedthrough combinatorial chemistry, for example. Such mimetics can bedesigned, selected and/or otherwise identified using a variety ofmethods known in the art. Various methods of drug design, useful todesign or select mimetics or other therapeutic compounds useful in thepresent invention are disclosed in Maulik et al., 1997, MolecularBiotechnology. Therapeutic Applications and Strategies, Wiley-Liss,Inc., which is incorporated herein by reference in its entirety.

[0050] A mimetic can be obtained, for example, from molecular diversitystrategies (a combination of related strategies allowing the rapidconstruction of large, chemically diverse molecule libraries), librariesof natural or synthetic compounds, in particular from chemical orcombinatorial libraries (i.e., libraries of compounds that differ insequence or size but that have the similar building blocks) or byrational, directed or random drug design. See for example, Maulik etal., supra.

[0051] In a molecular diversity strategy, large compound libraries aresynthesized, for example, from peptides, oligonucleotides, carbohydratesand/or synthetic organic molecules, using biological, enzymatic and/orchemical approaches. The critical parameters in developing a moleculardiversity strategy include subunit diversity, molecular size, andlibrary diversity. The general goal of screening such libraries is toutilize sequential application of combinatorial selection to obtainhigh-affinity ligands for a desired target, and then to optimize thelead molecules by either random or directed design strategies. Methodsof molecular diversity are described in detail in Maulik, et al., ibid.

[0052] Maulik et al. also disclose, for example, methods of directeddesign, in which the user directs the process of creating novelmolecules from a fragment library of appropriately selected fragments;random design, in which the user uses a genetic or other algorithm torandomly mutate fragments and their combinations while simultaneouslyapplying a selection criterion to evaluate the fitness of candidateligands; and a grid-based approach in which the user calculates theinteraction energy between three dimensional receptor structures andsmall fragment probes, followed by linking together of favorable probesites.

[0053] In one embodiment of the present invention, a protein suitablefor use in the present invention has an amino acid sequence thatcomprises, consists essentially of, or consists of a full lengthsequence of a thioredoxin protein or any fragment thereof that has athioredoxin active site as described herein. For example, any one of SEQID NOs4-12 or a fragment or other homologue thereof that contains athioredoxin active site as described herein is encompassed by theinvention. Such homologues can include proteins having an amino acidsequence that is at least about 10% identical to the amino acid sequenceof a full-length thioredoxin protein, or at least 20% identical, or atleast 30% identical, or at least 40% identical, or at least 50%identical, or at least 60% identical, or at least 70% identical, or atleast 80% identical, or at least 90% identical, or greater than 95%identical to the amino acid sequence of a full-length thioredoxinprotein, including any percentage between 10% and 100%, in wholeintegers (10%, 11%, 12%, . . . 98%, 99%, 100%).

[0054] As used herein, unless otherwise specified, reference to apercent (%) identity refers to an evaluation of homology which isperformed using: (1) a BLAST 2.0 Basic BLAST homology search usingblastp for amino acid searches and blastn for nucleic acid searches withstandard default parameters, wherein the query sequence is filtered forlow complexity regions by default (described in Altschul, S. F., Madden,T. L., Schääffer, A. A., Zhang, J., Zhang, Z., Miller, W. & Lipman, D.J. (1997) “Gapped BLAST and PSI-BLAST: a new generation of proteindatabase search programs.” Nucleic Acids Res. 25:3389-3402, incorporatedherein by reference in its entirety); (2) a BLAST 2 alignment (using theparameters described below); (3) and/or PSI-BLAST with the standarddefault parameters (Position-Specific Iterated BLAST. It is noted thatdue to some differences in the standard parameters between BLAST 2.0Basic BLAST and BLAST 2, two specific sequences might be recognized ashaving significant homology using the BLAST 2 program, whereas a searchperformed in BLAST 2.0 Basic BLAST using one of the sequences as thequery sequence may not identify the second sequence in the top matches.In addition, PSI-BLAST provides an automated, easy-to-use version of a“profile” search, which is a sensitive way to look for sequencehomologues. The program first performs a gapped BLAST database search.The PSI-BLAST program uses the information from any significantalignments returned to construct a position-specific score matrix, whichreplaces the query sequence for the next round of database searching.Therefore, it is to be understood that percent identity can bedetermined by using any one of these programs.

[0055] Two specific sequences can be aligned to one another using BLAST2 sequence as described in Tatusova and Madden, (1999), “Blast 2sequences—a new tool for comparing protein and nucleotide sequences”,FEMS Microbiol Lett. 174:247-250, incorporated herein by reference inits entirety. BLAST 2 sequence alignment is performed in blastp orblastn using the BLAST 2.0 algorithm to perform a Gapped BLAST search(BLAST 2.0) between the two sequences allowing for the introduction ofgaps (deletions and insertions) in the resulting alignment. For purposesof clarity herein, a BLAST 2 sequence alignment is performed using thestandard default parameters as follows. For blastn, using 0 BLOSUM62matrix:

[0056] Reward for match=1

[0057] Penalty for mismatch=−2

[0058] Open gap (5) and extension gap (2) penalties

[0059] gap x_dropoff (50) expect (10) word size (11) filter (on)

[0060] For blastp, using 0 BLOSUM62 matrix:

[0061] Open gap (11) and extension gap (1) penalties

[0062] gap x_dropoff (50) expect (10) word size (3) filter (on).

[0063] A protein useful in the present invention can also includeproteins having an amino acid sequence comprising at least 10 contiguousamino acid residues of any full-length thioredoxin protein (e.g., SEQ IDNOs:4-12)(i.e., 10 contiguous amino acid residues having 100% identitywith 10 contiguous amino acids of a reference sequence). In otherembodiments, a homologue of a thioredoxin protein includes amino acidsequences comprising at least 15, or at least 20, or at least 25, or atleast 30, or at least 35, or at least 40, or at least 45, or at least50, or at least 55, or at least 60, or at least 65, or at least 70, orat least 75, or at least 80 contiguous amino acid residues of the aminoacid sequence of a naturally occurring thioredoxin protein, and so on,up to the full-length of the protein, including any intervening lengthin whole integers (10, 11, 12, . . . ).

[0064] According to the present invention, the term “contiguous” or“consecutive”, with regard to sequences described herein, means to beconnected in an unbroken sequence. For example, for a first sequence tocomprise 30 contiguous (or consecutive) amino acids of a secondsequence, means that the first sequence includes an unbroken sequence of30 amino acid residues that is 100% identical to an unbroken sequence of30 amino acid residues in the second sequence. Similarly, for a firstsequence to have “100% identity” with a second sequence means that thefirst sequence exactly matches the second sequence with no gaps betweennucleotides or amino acids.

[0065] In another embodiment, a protein useful in the present inventionincludes a protein having an amino acid sequence that is sufficientlysimilar to a natural thioredoxin amino acid sequence that a nucleic acidsequence encoding the homologue is capable of hybridizing undermoderate, high or very high stringency conditions (described below) to(i.e., with) a nucleic acid molecule encoding the natural thioredoxinprotein (i.e., to the complement of the nucleic acid strand encoding thenatural thioredoxin amino acid sequence). Such hybridization conditionsare described in detail below.

[0066] A nucleic acid sequence complement of nucleic acid sequenceencoding a thioredoxin protein of the present invention refers to thenucleic acid sequence of the nucleic acid strand that is complementaryto the strand which encodes thioredoxin. It will be appreciated that adouble stranded DNA which encodes a given amino acid sequence comprisesa single strand DNA and its complementary strand having a sequence thatis a complement to the single strand DNA. As such, nucleic acidmolecules of the present invention can be either double-stranded orsingle-stranded, and include those nucleic acid molecules that formstable hybrids under stringent hybridization conditions with a nucleicacid sequence that encodes an amino acid sequence of a thioredoxinprotein, and/or with the complement of the nucleic acid sequence thatencodes such amino acid sequence. Methods to deduce a complementarysequence are known to those skilled in the art.

[0067] As used herein, reference to hybridization conditions refers tostandard hybridization conditions under which nucleic acid molecules areused to identify similar nucleic acid molecules. Such standardconditions are disclosed, for example, in Sambrook et al., MolecularCloning: A Laboratory Manual, Cold Spring Harbor Labs Press, 1989.Sambrook et al., ibid., is incorporated by reference herein in itsentirety (see specifically, pages 9.31-9.62). In addition, formulae tocalculate the appropriate hybridization and wash conditions to achievehybridization permitting varying degrees of mismatch of nucleotides aredisclosed, for example, in Meinkoth et al., 1984, Anal. Biochem. 138,267-284; Meinkoth et al., ibid., is incorporated by reference herein inits entirety.

[0068] More particularly, moderate stringency hybridization and washingconditions, as referred to herein, refer to conditions which permitisolation of nucleic acid molecules having at least about 70% nucleicacid sequence identity with the nucleic acid molecule being used toprobe in the hybridization reaction (i.e., conditions permitting about30% or less mismatch of nucleotides). High stringency hybridization andwashing conditions, as referred to herein, refer to conditions whichpermit isolation of nucleic acid molecules having at least about 80%nucleic acid sequence identity with the nucleic acid molecule being usedto probe in the hybridization reaction (i.e., conditions permittingabout 20% or less mismatch of nucleotides). Very high stringencyhybridization and washing conditions, as referred to herein, refer toconditions which permit isolation of nucleic acid molecules having atleast about 90% nucleic acid sequence identity with the nucleic acidmolecule being used to probe in the hybridization reaction (i.e.,conditions permitting about 10% or less mismatch of nucleotides). Asdiscussed above, one of skill in the art can use the formulae inMeinkoth et al., ibid. to calculate the appropriate hybridization andwash conditions to achieve these particular levels of nucleotidemismatch. Such conditions will vary, depending on whether DNA:RNA orDNA:DNA hybrids are being formed. Calculated melting temperatures forDNA:DNA hybrids are 10° C. less than for DNA:RNA hybrids. In particularembodiments, stringent hybridization conditions for DNA:DNA hybridsinclude hybridization at an ionic strength of 6×SSC (0.9 M Na⁺) at atemperature of between about 20° C. and about 35° C. (lower stringency),more preferably, between about 28° C. and about 40° C. (more stringent),and even more preferably, between about 35° C. and about 45° C. (evenmore stringent), with appropriate wash conditions. In particularembodiments, stringent hybridization conditions for DNA:RNA hybridsinclude hybridization at an ionic strength of 6×SSC (0.9 M Na⁺) at atemperature of between about 30° C. and about 45° C., more preferably,between about 38° C. and about 50° C., and even more preferably, betweenabout 45° C. and about 55° C., with similarly stringent wash conditions.These values are based on calculations of a melting temperature formolecules larger than about 100 nucleotides, 0% formamide and a G+Ccontent of about 40%. Alternatively, T_(m) can be calculated empiricallyas set forth in Sambrook et al., supra, pages 9.31 to 9.62. In general,the wash conditions should be as stringent as possible, and should beappropriate for the chosen hybridization conditions. For example,hybridization conditions can include a combination of salt andtemperature conditions that are approximately 20-25° C. below thecalculated T_(m) of a particular hybrid, and wash conditions typicallyinclude a combination of salt and temperature conditions that areapproximately 12-20° C. below the calculated T_(m) of the particularhybrid. One example of hybridization conditions suitable for use withDNA:DNA hybrids includes a 2-24 hour hybridization in 6×SSC (50%formamide) at about 42° C., followed by washing steps that include oneor more washes at room temperature in about 2×SSC, followed byadditional washes at higher temperatures and lower ionic strength (e.g.,at least one wash as about 37° C. in about 0.1×-0.5×SSC, followed by atleast one wash at about 68° C. in about 0.1×-0.5×SSC).

[0069] A protein of the present invention can also be a fusion proteinthat includes a segment containing a thioredoxin active-site and afusion segment that can have a variety of functions. For example, such afusion segment can function as a tool to simplify purification of aprotein of the present invention, such as to enable purification of theresultant fusion protein using affinity chromatography. A suitablefusion segment can be a domain of any size that has the desired function(e.g., imparts increased stability to a protein, imparts increasedimmunogenicity to a protein, and/or simplifies purification of aprotein). It is within the scope of the present invention to use one ormore fusion segments. Fusion segments can be joined to amino and/orcarboxyl termini of the segment containing a thioredoxin active-site.Linkages between fusion segments and thioredoxin active-site-containingdomains of fusion proteins can be susceptible to cleavage in order toenable straight-forward recovery of the thioredoxinactive-site-containing domains of such proteins. Fusion proteins arepreferably produced by culturing a recombinant cell transformed with afusion nucleic acid molecule that encodes a protein including the fusionsegment attached to either the carboxyl and/or amino terminal end of anthioredoxin active-site-containing domain.

[0070] In one embodiment, a protein or peptide containing a thioredoxinactive-site suitable for use with the method of the present inventioncomprises a protein or peptide containing a thioredoxin active-sitederived from a substantially similar species of animal as that to whichthe protein is to be administered. In another embodiment, any protein orpeptide containing a thioredoxin active-site, including from diversesources such as microbial and plant, can be used in a given patient.

[0071] In one embodiment of the present invention, any of the amino acidsequences described herein, such as the amino acid sequence of anaturally occurring thioredoxin protein, can be produced with from atleast one, and up to about 20, additional heterologous amino acidsflanking each of the C- and/or N-terminal ends of the specified aminoacid sequence. The resulting protein or polypeptide can be referred toas “consisting essentially of” the specified amino acid sequence.According to the present invention, the heterologous amino acids are asequence of amino acids that are not naturally found (i.e., not found innature, in vivo) flanking the specified amino acid sequence, or that arenot related to the function of the specified amino acid sequence, orthat would not be encoded by the nucleotides that flank the naturallyoccurring nucleic acid sequence encoding the specified amino acidsequence as it occurs in the gene, if such nucleotides in the naturallyoccurring sequence were translated using standard codon usage for theorganism from which the given amino acid sequence is derived. Similarly,the phrase “consisting essentially of”, when used with reference to anucleic acid sequence herein, refers to a nucleic acid sequence encodinga specified amino acid sequence that can be flanked by from at leastone, and up to as many as about 60, additional heterologous nucleotidesat each of the 5′ and/or the 3′ end of the nucleic acid sequenceencoding the specified amino acid sequence. The heterologous nucleotidesare not naturally found (i.e., not found in nature, in vivo) flankingthe nucleic acid sequence encoding the specified amino acid sequence asit occurs in the natural gene or do not encode a protein that impartsany additional function to the protein or changes the function of theprotein having the specified amino acid sequence.

[0072] In another embodiment, a protein or peptide containing athioredoxin active-site suitable for use with the method of the presentinvention comprises an isolated, or biologically pure, protein which hasbeen removed from its natural milieu. As such, “isolated” and“biologically pure” do not necessarily reflect the extent to which theprotein has been purified. An isolated protein of the present inventioncan, for example, be obtained from its natural source, be produced usingrecombinant DNA technology (e.g., polymerase chain reaction (PCR)amplification, cloning), or be synthesized chemically.

[0073] Preferably, the protein containing a thioredoxin active site tobe used in methods of the invention have a half-life in vivo that issufficient to cause a measurable or detectable increase in liquefaction(or decrease in the viscosity or cohesivity) of mucus or sputum in apatient, and or to cause a measurable, detectable or perceivedtherapeutic benefit to the patient that is associated with the mucus andsputum in the patient. Such half-life can be effected by the method ofdelivery of such a protein. A protein of the present inventionpreferably has a half-life of greater than about 5 minutes in an animal,and more preferably greater than about 4 hours in an animal, and evenmore preferably greater than about 16 hours in an animal. In a preferredembodiment, a protein of the present invention has a half-life ofbetween about 5 minutes and about 24 hours in an animal, and preferablybetween about 2 hours and about 16 hours in an animal, and morepreferably between about 4 hours and about 12 hours in an animal.

[0074] Further embodiments of the present invention include nucleic acidmolecules that encode a protein or peptide containing a thioredoxinactive site. Such nucleic acid molecules can be used to produce aprotein that is useful in the method of the present invention in vitroor in vivo. A nucleic acid molecule of the present invention includes anucleic acid molecule comprising, consisting essentially of, orconsisting of, a nucleic acid sequence encoding any of the proteinsdescribed previously herein. In accordance with the present invention,an isolated nucleic acid molecule is a nucleic acid molecule(polynucleotide) that has been removed from its natural milieu (i.e.,that has been subject to human manipulation) and can include DNA, RNA,or derivatives of either DNA or RNA, including cDNA. As such, “isolated”does not reflect the extent to which the nucleic acid molecule has beenpurified. Although the phrase “nucleic acid molecule” primarily refersto the physical nucleic acid molecule and the phrase “nucleic acidsequence” primarily refers to the sequence of nucleotides on the nucleicacid molecule, the two phrases can be used interchangeably, especiallywith respect to a nucleic acid molecule, or a nucleic acid sequence,being capable of encoding a protein. An isolated nucleic acid moleculeof the present invention can be isolated from its natural source orproduced using recombinant DNA technology (e.g., polymerase chainreaction (PCR) amplification, cloning) or chemical synthesis. Isolatednucleic acid molecules can include, for example, genes, natural allelicvariants of genes, coding regions or portions thereof, and coding and/orregulatory regions modified by nucleotide insertions, deletions,substitutions, and/or inversions in a manner such that the modificationsdo not substantially interfere with the nucleic acid molecule's abilityto encode the desired protein of the present invention or to form stablehybrids under stringent conditions with natural gene isolates. Anisolated nucleic acid molecule can include degeneracies. As used herein,nucleotide degeneracies refers to the phenomenon that one amino acid canbe encoded by different nucleotide codons. Thus, the nucleic acidsequence of a nucleic acid molecule that encodes a given protein usefulin the present invention can vary due to degeneracies.

[0075] According to the present invention, reference to a gene includesall nucleic acid sequences related to a natural (i.e. wild-type) gene,such as regulatory regions that control production of the proteinencoded by that gene (such as, but not limited to, transcription,translation or post-translation control regions) as well as the codingregion itself. In another embodiment, a gene can be a naturallyoccurring allelic variant that includes a similar but not identicalsequence to the nucleic acid sequence encoding a given protein. Allelicvariants have been previously described above. The phrases “nucleic acidmolecule” and “gene” can be used interchangeably when the nucleic acidmolecule comprises a gene as described above.

[0076] Preferably, an isolated nucleic acid molecule of the presentinvention is produced using recombinant DNA technology (e.g., polymerasechain reaction (PCR) amplification, cloning) or chemical synthesis.Isolated nucleic acid molecules include natural nucleic acid moleculesand homologues thereof, including, but not limited to, natural allelicvariants and modified nucleic acid molecules in which nucleotides havebeen inserted, deleted, substituted, and/or inverted in such a mannerthat such modifications provide the desired effect on protein biologicalactivity. Allelic variants and protein homologues (e.g., proteinsencoded by nucleic acid homologues) have been discussed in detail above.

[0077] A nucleic acid molecule homologue can be produced using a numberof methods known to those skilled in the art (see, for example, Sambrooket al.). For example, nucleic acid molecules can be modified using avariety of techniques including, but not limited to, by classicmutagenesis and recombinant DNA techniques (e.g., site-directedmutagenesis, chemical treatment, restriction enzyme cleavage, ligationof nucleic acid fragments and/or PCR amplification), or synthesis ofoligonucleotide mixtures and ligation of mixture groups to “build” amixture of nucleic acid molecules and combinations thereof. Anothermethod for modifying a recombinant nucleic acid molecule encoding agiven protein is gene shuffling (i.e., molecular breeding) (See, forexample, U.S. Pat. No. 5,605,793 to Stemmer; Minshull and Stemmer; 1999,Curr. Opin. Chem. Biol. 3:284-290; Stemmer, 1994, P.N.A.S. USA91:10747-10751, all of which are incorporated herein by reference intheir entirety). This technique can be used to efficiently introducemultiple simultaneous changes in the protein. Nucleic acid moleculehomologues can be selected by hybridization with an given gene or byscreening the function of a protein encoded by a nucleic acid molecule(i.e., biological activity).

[0078] One embodiment of the present invention relates to a recombinantnucleic acid molecule which comprises the isolated nucleic acid moleculedescribed above which is operatively linked to at least onetranscription control sequence. More particularly, according to thepresent invention, a recombinant nucleic acid molecule typicallycomprises a recombinant vector and the isolated nucleic acid molecule asdescribed herein. According to the present invention, a recombinantvector is an engineered (i.e., artificially produced) nucleic acidmolecule that is used as a tool for manipulating a nucleic acid sequenceof choice and/or for introducing such a nucleic acid sequence into ahost cell. The recombinant vector is therefore suitable for use incloning, sequencing, and/or otherwise manipulating the nucleic acidsequence of choice, such as by expressing and/or delivering the nucleicacid sequence of choice into a host cell to form a recombinant cell.Such a vector typically contains heterologous nucleic acid sequences,that is, nucleic acid sequences that are not naturally found adjacent tonucleic acid sequence to be cloned or delivered, although the vector canalso contain regulatory nucleic acid sequences (e.g., promoters,untranslated regions) which are naturally found adjacent to nucleic acidsequences of the present invention or which are useful for expression ofthe nucleic acid molecules of the present invention (discussed in detailbelow). The vector can be either RNA or DNA, either prokaryotic oreukaryotic, and typically is a plasmid. The vector can be maintained asan extrachromosomal element (e.g., a plasmid) or it can be integratedinto the chromosome of a recombinant host cell, although it is preferredif the vector remain separate from the genome for most applications ofthe invention. The entire vector can remain in place within a host cell,or under certain conditions, the plasmid DNA can be deleted, leavingbehind the nucleic acid molecule of the present invention. An integratednucleic acid molecule can be under chromosomal promoter control, undernative or plasmid promoter control, or under a combination of severalpromoter controls. Single or multiple copies of the nucleic acidmolecule can be integrated into the chromosome. A recombinant vector ofthe present invention can contain at least one selectable marker.

[0079] In one embodiment, a recombinant vector used in a recombinantnucleic acid molecule of the present invention is an expression vector.As used herein, the phrase “expression vector” is used to refer to avector that is suitable for production of an encoded product (e.g., aprotein of interest). In this embodiment, a nucleic acid sequenceencoding the product to be produced (e.g., the protein containing athioredoxin active site) is inserted into the recombinant vector toproduce a recombinant nucleic acid molecule. The nucleic acid sequenceencoding the protein to be produced is inserted into the vector in amanner that operatively links the nucleic acid sequence to regulatorysequences in the vector which enable the transcription and translationof the nucleic acid sequence within the recombinant host cell.

[0080] In another embodiment of the invention, the recombinant nucleicacid molecule comprises a viral vector. A viral vector includes anisolated nucleic acid molecule of the present invention integrated intoa viral genome or portion thereof, in which the nucleic acid molecule ispackaged in a viral coat that allows entrance of DNA into a cell. Anumber of viral vectors can be used, including, but not limited to,those based on alphaviruses, poxviruses, adenoviruses, herpesviruses,lentiviruses, adeno-associated viruses and retroviruses.

[0081] Typically, a recombinant nucleic acid molecule includes at leastone nucleic acid molecule of the present invention operatively linked toone or more expression control sequences. As used herein, the phrase“recombinant molecule” or “recombinant nucleic acid molecule” primarilyrefers to a nucleic acid molecule or nucleic acid sequence operativelylinked to an expression control sequence, but can be usedinterchangeably with the phrase “nucleic acid molecule”, when suchnucleic acid molecule is a recombinant molecule as discussed herein.According to the present invention, the phrase “operatively linked”refers to linking a nucleic acid molecule to an expression controlsequence in a manner such that the molecule is able to be expressed whentransfected (i.e., transformed, transduced, transfected, conjugated orconduced) into a host cell. Transcription control sequences areexpression control sequences that control the initiation, elongation, ortermination of transcription. Particularly important transcriptioncontrol sequences are those which control transcription initiation, suchas promoter, enhancer, operator and repressor sequences. Suitabletranscription control sequences include any transcription controlsequence that can function in a host cell or organism into which therecombinant nucleic acid molecule is to be introduced. Recombinantnucleic acid molecules of the present invention can also containadditional regulatory sequences, such as translation regulatorysequences, origins of replication, and other regulatory sequences thatare compatible with the recombinant cell. In one embodiment, arecombinant molecule of the present invention, including those which areintegrated into the host cell chromosome, also contains secretorysignals (i.e., signal segment nucleic acid sequences) to enable anexpressed protein to be secreted from the cell that produces theprotein. Suitable signal segments include a signal segment that isnaturally associated with the protein to be expressed or anyheterologous signal segment capable of directing the secretion of theprotein according to the present invention. In another embodiment, arecombinant molecule of the present invention comprises a leadersequence to enable an expressed protein to be delivered to and insertedinto the membrane of a host cell. Suitable leader sequences include aleader sequence that is naturally associated with the protein, or anyheterologous leader sequence capable of directing the delivery andinsertion of the protein to the membrane of a cell.

[0082] According to the present invention, the term “transfection” isused to refer to any method by which an exogenous nucleic acid molecule(i.e., a recombinant nucleic acid molecule) can be inserted into a cell.The term “transformation” can be used interchangeably with the term“transfection” when such term is used to refer to the introduction ofnucleic acid molecules into microbial cells or plants. In microbialsystems, the term “transformation” is used to describe an inheritedchange due to the acquisition of exogenous nucleic acids by themicroorganism and is essentially synonymous with the term“transfection.” However, in animal cells, transformation has acquired asecond meaning which can refer to changes in the growth properties ofcells in culture (described above) after they become cancerous, forexample. Therefore, to avoid confusion, the term “transfection” ispreferably used with regard to the introduction of exogenous nucleicacids into animal cells, and is used herein to generally encompasstransfection of animal cells and transformation of plant cells andmicrobial cells, to the extent that the terms pertain to theintroduction of exogenous nucleic acids into a cell. Therefore,transfection techniques include, but are not limited to, transformation,particle bombardment, electroporation, microinjection, lipofection,adsorption, infection and protoplast fusion.

[0083] One or more recombinant molecules of the present invention can beused to produce an encoded product (e.g., a protein containing athioredoxin active site) of the present invention. In one embodiment, anencoded product is produced by expressing a nucleic acid molecule asdescribed herein under conditions effective to produce the protein. Apreferred method to produce an encoded protein is by transfecting a hostcell with one or more recombinant molecules to form a recombinant cell.

[0084] In a preferred embodiment, a protein or peptide containing athioredoxin active site in reduced state is contacted with the mucus orsputum to be treated in a composition. The composition comprises theprotein containing a thioredoxin active site, and may include one ormore additional compounds, such as other compounds that can be used toreduce excessively viscous or cohesive mucus or sputum or increase theliquefaction of such mucus or sputum. In one embodiment, a compositioncan be used to delivery a nucleic acid molecule encoding a protein orpeptide containing a thioredoxin active site to a cell in the patient tobe treated (e.g., an epithelial cell in the lung or airways), such thatthe cell can become transfected with and express the protein, and sothat the protein can contact mucus or sputum in the microenvironment ofthe cell.

[0085] A composition can also include, for example, a pharmaceuticallyacceptable carrier, which includes pharmaceutically acceptableexcipients and/or delivery vehicles, for delivering a protein or nucleicacid molecule or other regulatory compound to a patient. As used herein,a pharmaceutically acceptable carrier refers to any substance suitablefor delivering a therapeutic protein, nucleic acid or other compounduseful in the method of the present invention to a suitable in vivo orex vivo site. Preferred pharmaceutically acceptable carriers are capableof maintaining a protein, nucleic acid molecule or compound in a formthat, upon arrival of the protein, nucleic acid molecule or compound atthe desired site (e.g., the site where the mucus or sputum to be treatedis secreted or drains), is capable of contacting the mucus or sputum (inthe case of a protein or compound) or of entering the cell and beingexpressed by the cell (in the case of a nucleic acid molecule) so thatthe expressed protein can contact the mucus or sputum. Suitableexcipients of the present invention include excipients or formulariesthat transport or help transport, but do not specifically target atherapeutic agent (protein, nucleic acid or compound) to a cell, tissueor fluid (mucus or sputum) (also referred to herein as non-targetingcarriers). Examples of pharmaceutically acceptable excipients include,but are not limited to water, phosphate buffered saline, Ringer'ssolution, dextrose solution, serum-containing solutions, Hank'ssolution, other aqueous physiologically balanced solutions, oils, estersand glycols. Aqueous carriers can contain suitable auxiliary substancesrequired to approximate the physiological conditions of the recipient,for example, by enhancing chemical stability and isotonicity.

[0086] Suitable auxiliary substances include, for example, sodiumacetate, sodium chloride, sodium lactate, potassium chloride, calciumchloride, and other substances used to produce phosphate buffer, Trisbuffer, and bicarbonate buffer. Auxiliary substances can also includepreservatives, such as thimerosal, m- or o-cresol, formalin and benzolalcohol. Compositions of the present invention can be sterilized byconventional methods and/or lyophilized.

[0087] One type of pharmaceutically acceptable carrier includes acontrolled release formulation that is capable of slowly releasing acomposition of the present invention into a patient. As used herein, acontrolled release formulation comprises one or more therapeutic agentsof the present invention in a controlled release vehicle. Suitablecontrolled release vehicles include, but are not limited to,biocompatible polymers, other polymeric matrices, capsules,microcapsules, microparticles, bolus preparations, osmotic pumps,diffusion devices, liposomes, lipospheres, and transdermal deliverysystems. Suitable delivery vehicles for nucleic acids include, but arenot limited to liposomes, viral vectors or other delivery vehicles,including ribozymes.

[0088] A liposome delivery vehicle comprises a lipid composition that iscapable of delivering a protein, compound or nucleic acid molecule to asuitable cell and/or tissue in a patient. A liposome delivery vehiclecan comprise a lipid composition that is capable of fusing with theplasma membrane of a cell to deliver the composition into a cell. Aliposome delivery vehicle is preferably capable of remaining stable in apatient for a sufficient amount of time to deliver a composition to apreferred site in the patient. Suitable liposomes for use with thepresent invention include any liposome.

[0089] A suitable, or effective, amount of a protein or peptidecontaining a thioredoxin active-site to administer to a patient is anamount that is capable of: participating in redox reactions through thereversible oxidation of its active-site dithiol to a disulfide,catalyzing dithiol-disulfide exchange reactions, and particularly,decreasing the viscosity or cohesivity of mucus or sputum and/orincreasing the liquefaction of mucus or sputum in a patient, and moreparticularly, increasing the liquefaction of mucus or sputum in apatient sufficient to provide a therapeutic benefit to the patient.Decreases in the viscosity or cohesivity or increases in theliquefaction of mucus or sputum can be measured, detected or determinedas described previously herein or by any suitable method known to thoseof skill in the art.

[0090] In one embodiment, a preferred amount of a protein or peptidecontaining a thioredoxin active-site to be administered to a patientcomprises between about 0.1 micromoles×kilograms' and about 150micromoles×kilograms' body weight of a patient. In another embodiment, apreferred amount of a protein or peptide containing a thioredoxinactive-site to be administered to a patient comprises between about 1.5micromoles×kilogram⁻¹ and about 150 micromoles×kilograms' body weight ofa patient. A more preferred amount of a protein or peptide containing athioredoxin active-site to be administered to a patient comprisesbetween about 2 micromoles×kilogram⁻¹ and about 25 micromoles×kilogram⁻¹body weight of a patient. An even more preferred amount of a protein orpeptide containing a thioredoxin active-site to be administered to apatient comprises between about 3 micromoles×kilograms' and about 10micromoles×kilogram⁻¹ body weight of a patient.

[0091] In another embodiment, if the route of delivery is aerosol or asimilar route, an amount of a protein or peptide containing athioredoxin active-site to be administered to a patient comprises atleast about 0.25 mg per dosing unit (e.g., a dosing unit for a human istypically about 2-3 ml) and about 25 mg per dosing unit. Preferably, anamount of a protein or peptide containing a thioredoxin active-site tobe administered to a patient comprises at least about 0.25 mg per dosingunit, and more preferably at least about 0.3 mg per dosing unit, andmore preferably at least about 0.35 mg per dosing unit, and so on, inincrements of 0.05 mg, up to greater than 25 mg per dosing unit. Foraerosol delivery, typically, only about 10% of the volume in the aerosolis actually delivered to the airway. Therefore, for other routes ofadministration when the volume of the composition that will be deliveredto the site is greater, it will readily be seen that lower doses of theprotein or peptide comprising a thioredoxin active site may be used.

[0092] The optimum amount of a protein of the present invention to beadministered to an animal will vary depending on the route ofadministration. For instance, if the protein is administered by aninhaled (aerosol) route, the optimum amount to be administered may bedifferent than the optimum amount to be administered by intratrachealinjection. It is within the ability of one skilled in the art to varythe amount depending on such route of administration. It is important tonote that a suitable amount of a protein of the present invention is anamount that has the desired function without being toxic to an animal.

[0093] In a preferred embodiment of the present invention, a compositionof the present invention that contains a protein comprising athioredoxin reactive site is further formulated with one or more agentscomprising a reducing system that maintains or reduces the thioredoxinactive site in the protein to the reduced state. Preferably, such anagent includes nicotinamide-adenine dinucleotide phosphate (reducedform) (NADPH) and/or thioredoxin reductase, with formulation with NADPHbeing particularly preferred. The present inventor has found that thepresence of a reducing system with a protein or peptide containing athioredoxin active site significantly increases the ability of theprotein containing a thioredoxin active site to function in the methodof the invention (e.g. to increase the liquefaction of mucus or sputum).In addition, the present inventor has found that it is sufficient toinclude NADPH as the reducing system, and therefore, thioredoxinreductase is not a necessary component of the reducing system, but canbe included, if desired. Other reducing systems can be used in thepresent invention and include, but are not limited to, NADH-dependentthioredoxin reductase, lipoic acid, and other biological reductants. Ingeneral, the present inventor contemplates that an original source ofreducing equivalents, most likely NADPH or NADH, will be an importantcomponent of a composition of the present invention for optimaltherapeutic benefit. However, additional component(s) which serve anintermediary function of transferring the reducing equivalents (H⁺, fromNADPH or NADH) to the thioredoxin or thioredoxin active site-containingmolecule, also can be used.

[0094] When NADPH is included in a composition of the present invention,the composition is preferably formulated with between about 0.5 μM andabout 20 mM achieved surface concentration of NADPH, and morepreferably, between about 5 μM and about 2 mM achieved surfaceconcentration of NADPH, and even more preferably, between about 50 μMand about 200 μM achieved surface concentration of NADPH. In anotherembodiment, the composition can be formulated with any suitable amountof NADPH, preferably between about 0.5 μM and about 20 mM achievedsurface concentration of NADPH in increments of 0.1 μM (i.e., 0.5 μM,0.6 μM, . . . 19.9 μM, 20 μM). An “achieved surface concentration” isthe concentration of a particular chemical, such as NADPH, that isachieved, or present, at the surface of a cell or tissue, for example,at the surface of lung epithelial lining. Therefore, it may be necessaryto actually administer a larger concentration of a particular chemicalin order to achieve a certain surface concentration. It is well withinthe ability of one skilled in the art to determine such concentrations.When thioredoxin reductase in included in a composition of the presentinvention, it is preferably formulated with between about 0.001 μM andabout 1 μM achieved surface concentration of thioredoxin reductase, andmore preferably, between about 0.001 μM and about 0.1 μM achievedsurface concentration of thioredoxin reductase, including any amountbetween about 0.0001 μM and 1 μM, in increments of 0.001 μM. In oneembodiment, it is not necessary to include any thioredoxin reductase ina composition of the invention. It is within the scope of the presentinvention that such amounts of thioredoxin reductase and/or NADPH can bemodified by one skilled in the art in order to maintain or enhance thereduced state of a thioredoxin active-site, as the amount of a proteinor peptide containing such active-site or the mode of deliveryindicates.

[0095] As discussed above, a composition of the invention can includeone or more additional compounds, such as other compounds that can beused to reduce excessively viscous or cohesive mucus or sputum orincrease the liquefaction of such mucus or sputum. Examples of suchcompounds are known in the art and include, but are not limited to,purified rhDNase, N-acetylcysteine, nacystelyn (an N-acetyl-L-cysteinederivative), and gelsolin.

[0096] As discussed above, a composition of the present invention isadministered to a patient in a manner effective to deliver thecomposition, and particularly the protein comprising a thioredoxinactive site, a recombinant nucleic acid molecule comprising a nucleicacid sequence encoding a protein or peptide containing a thioredoxinactive site, and/or any other compounds in the composition, to a targetsite (e.g., mucus or sputum to be treated for proteins and compounds, atarget host cell that will be or is in the environment of the mucus orsputum to be treated for recombinant nucleic acid molecules). Suitableadministration protocols include any in vivo or ex vivo administrationprotocol.

[0097] According to the present invention, an effective administrationprotocol (i.e., administering a composition of the present invention inan effective manner) comprises suitable dose parameters and modes ofadministration that result in contact of the protein containing athioredoxin active site and/or other compound in the composition withthe mucus or sputum to be treated, or in the transfection and expressionof a recombinant nucleic acid molecule encoding a protein comprising athioredoxin active site in a desired host cell of a patient, preferablyso that the patient obtains some measurable, observable or perceivedbenefit from such administration. In some situations, by sampling themucus or sputum from the patient, effective dose parameters can bedetermined using methods as described herein for assessment of mucus orsputum viscosity or liquefaction. Alternatively, effective doseparameters can be determined by experimentation using in vitro samples,in vivo animal models, and eventually, clinical trials if the patient ishuman. Effective dose parameters can be determined using methodsstandard in the art for a particular disease or condition. Such methodsinclude, for example, determination of survival rates, side effects(i.e., toxicity) and progression or regression of disease.

[0098] According to the present invention, suitable methods ofadministering a composition of the present invention to a patientinclude any route of in vivo administration that is suitable fordelivering the composition to the desired site into a patient. Thepreferred routes of administration will be apparent to those of skill inthe art, depending on whether the compound is a protein, nucleic acid,or other compound (e.g., a drug), to what part of the body thecomposition is to be administered, and the disease or conditionexperienced by the patient. In general, methods of in vivoadministration include, but are not limited to, intravenousadministration, intraperitoneal administration, intramuscularadministration, intracoronary administration, intraarterialadministration (e.g., into a carotid artery), subcutaneousadministration, transdermal delivery, intratracheal administration,subcutaneous administration, intraarticular administration,intraventricular administration, inhalation (e.g., aerosol),intracerebral, nasal, oral, pulmonary administration, impregnation of acatheter, and direct injection into a tissue. Aural delivery can includeear drops, intranasal delivery can include nose drops or intranasalinjection, and intraocular delivery can include eye drops. Aerosol(inhalation) delivery can also be performed using methods standard inthe art (see, for example, Stribling et al., Proc. Natl. Acad. Sci. USA189:11277-11281, 1992, which is incorporated herein by reference in itsentirety). Oral delivery can include solids and liquids that can betaken through the mouth, for example, as tablets or capsules, as well asbeing formulated into food and beverage products. Other routes ofadministration that are useful for mucosal tissues include bronchial,intradermal, intramuscular, intranasal, other inhalatory, rectal,subcutaneous, topical, transdermal, vaginal, transcervical, pericervicaland urethral routes. In addition, administration protocols can includepretreatment devices, such as application of the protein, peptide orcomposition in a diaphragm (e.g., to the cervix) for use in applicationssuch as infertility. In a preferred embodiment of the present invention,when the protein or composition of the invention is administered totreat excessively or abnormally viscous or cohesive sputum or mucus inthe respiratory tract (airways), a protein or peptide (or composition)containing a thioredoxin active-site or other compound is administeredby a route including, but not limited to, inhalation (i.e. by inhalingan aerosol, e.g., in or with surfactants); direct installation into thelung via a bronchoscope, endotracheal tube and/or via any artificialventilation device; nasal administration (intranasal or transnasal),bronchial, or intratracheally (i.e. by injection directly into thetrachea or tracheostomy), either directly or via lipid-encapsulation orsurfactant. Any conceivable method of introducing the composition orprotein into the airways so that it can contact the mucus or sputumtherein is encompassed by the invention.

[0099] Various methods of administration and delivery vehicles disclosedherein have been shown to be effective for delivery of a nucleic acidmolecule to a target cell, whereby the nucleic acid molecule transfectedthe cell and was expressed. In many studies, successful delivery andexpression of a heterologous gene was achieved in preferred cell typesand/or using preferred delivery vehicles and routes of administration ofthe present invention.

[0100] For example, using liposome delivery, U.S. Pat. No. 5,705,151,issued Jan. 6, 1998, to Dow et al. demonstrated the successful in vivointravenous delivery of a nucleic acid molecule encoding a superantigenand a nucleic acid molecule encoding a cytokine in a cationic liposomedelivery vehicle, whereby the encoded proteins were expressed in tissuesof the animal, and particularly in pulmonary tissues. In addition, Liuet al., Nature Biotechnology 15:167, 1997, demonstrated that intravenousdelivery of cholesterol-containing cationic liposomes containing genespreferentially targets pulmonary tissues and effectively mediatestransfer and expression of the genes in vivo. Several publications byDzau and collaborators demonstrate the successful in vivo delivery andexpression of a gene into cells of the heart, including cardiac myocytesand fibroblasts and vascular smooth muscle cells using both naked DNAand Hemagglutinating virus of Japan-liposome delivery, administered byboth incubation within the pericardium and infusion into a coronaryartery (intracoronary delivery) (See, for example, Aoki et al., 1997, J.Mol. Cell, Cardiol. 29:949-959; Kaneda et al., 1997, Ann N.Y. Acad. Sci.811:299-308; and von der Leyen et al., 1995, Proc Natl Acad Sci USA92:1137-1141).

[0101] Delivery of numerous nucleic acid sequences has been accomplishedby administration of viral vectors encoding the nucleic acid sequences.Using such vectors, successful delivery and expression has been achievedusing ex vivo delivery (See, of many examples, retroviral vector; Blaeseet al., 1995, Science 270:475-480; Bordignon et al., 1995, Science270:470-475), nasal administration (CFTR-adenovirus-associated vector),intracoronary administration (adenoviral vector and Hemagglutinatingvirus of Japan, see above), intravenous administration (adeno-associatedviral vector; Koeberl et al., 1997, Proc Natl Acad Sci USA94:1426-1431). A publication by Maurice et al. (1999, J. Clin. Invest.104:21-29) demonstrated that an adenoviral vector encoding aP2-adrenergic receptor, administered by intracoronary delivery, resultedin diffuse multichamber myocardial expression of the gene in vivo, andsubsequent significant increases in hemodynamic function and otherimproved physiological parameters. Levine et al. describe in vitro, exvivo and in vivo delivery and expression of a gene to human adipocytesand rabbit adipocytes using an adenoviral vector and direct injection ofthe constructs into adipose tissue (Levine et al., 1998, J Nutr. Sci.Vitaminol. 44:569-572).

[0102] In the area of neuronal gene delivery, multiple successful invivo gene transfers have been reported. Millecamps et al. reported thetargeting of adenoviral vectors to neurons using neuron restrictiveenhancer elements placed upstream of the promoter for the transgene(phosphoglycerate promoter). Such vectors were administered to mice andrats intramuscularly and intracerebrally, respectively, resulting insuccessful neuronal-specific transfection and expression of thetransgene in vivo (Millecamps et al., 1999, Nat. Biotechnol.17:865-869). As discussed above, Bennett et al. reported the use ofadeno-associated viral vector to deliver and express a gene bysubretinal injection in the neural retina in vivo for greater than 1year (Bennett, 1999, ibid.).

[0103] Gene delivery to synovial lining cells and articular joints hashad similar successes. Oligino and colleagues report the use of a herpessimplex viral vector which is deficient for the immediate early genes,ICP4, 22 and 27, to deliver and express two different receptors insynovial lining cells in vivo (Oligino et al., 1999, Gene Ther.6:1713-1720). The herpes vectors were administered by intraarticularinjection. Kuboki et al. used adenoviral vector-mediated gene transferand intraarticular injection to successfully and specifically express agene in the temporomandibular joints of guinea pigs in vivo (Kuboki etal., 1999, Arch. Oral. Biol. 44:701-709). Apparailly and colleaguessystemically administered adenoviral vectors encoding IL-10 to mice anddemonstrated successful expression of the gene product and profoundtherapeutic effects in the treatment of experimentally induced arthritis(Apparailly et al., 1998, J. Immunol. 160:5213-5220). In another study,murine leukemia virus-based retroviral vector was used to deliver (byintraarticular injection) and express a human growth hormone gene bothex vivo and in vivo (Ghivizzani et al., 1997, Gene Ther. 4:977-982).This study showed that expression by in vivo gene transfer was at leastequivalent to that of the ex vivo gene transfer. As discussed above,Sawchuk et al. has reported successful in vivo adenoviral vectordelivery of a gene by intraarticular injection, and prolonged expressionof the gene in the synovium by pretreatment of the joint with anti-Tcell receptor monoclonal antibody (Sawchuk et al., 1996, ibid. Finally,it is noted that ex vivo gene transfer of human interleukin-1 receptorantagonist using a retrovirus has produced high level intraarticularexpression and therapeutic efficacy in treatment of arthritis, and isnow entering FDA approved human gene therapy trials (Evans and Robbins,1996, Curr. Opin. Rheumatol. 8:230-234). Therefore, the state of the artin gene therapy has led the FDA to consider human gene therapy anappropriate strategy for the treatment of at least arthritis. Takentogether, all of the above studies in gene therapy indicate thatdelivery and expression of a recombinant nucleic acid molecule accordingto the present invention is feasible.

[0104] Another method of delivery of recombinant molecules is in anon-targeting carrier (e.g., as “naked” DNA molecules, such as istaught, for example in Wolff et al., 1990, Science 247, 1465-1468). Suchrecombinant nucleic acid molecules are typically injected by direct orintramuscular administration. Recombinant nucleic acid molecules to beadministered by naked DNA administration include an isolated nucleicacid molecule of the present invention, and preferably includes arecombinant molecule of the present invention that preferably isreplication, or otherwise amplification, competent. A naked nucleic acidreagent of the present invention can comprise one or more nucleic acidmolecules of the present invention including a dicistronic recombinantmolecule. Naked nucleic acid delivery can include intramuscular,subcutaneous, intradermal, transdermal, intranasal and oral routes ofadministration, with direct injection into the target tissue being mostpreferred. A preferred single dose of a naked nucleic acid vaccineranges from about 1 nanogram (ng) to about 100 μg, depending on theroute of administration and/or method of delivery, as can be determinedby those skilled in the art. Suitable delivery methods include, forexample, by injection, as drops, aerosolized and/or topically. In oneembodiment, pure DNA constructs cover the surface of gold particles (1to 3 μm in diameter) and are propelled into skin cells or muscle with a“gene gun.”

[0105] In the method of the present invention, therapeutic compositionscan be administered to any member of the Vertebrate class, Mammalia,including, without limitation, primates, rodents, livestock and domesticpets. Preferred patients to protect are humans.

[0106] The following examples are provided for the purpose ofillustration and are not intended to limit the scope of the presentinvention.

EXAMPLES

[0107] The following Materials and Methods were used in Examples 1-6below.

[0108] Reagents and materials. Lyophilized recombinant E. coli Trx wasobtained from Promega (Madison, Wis.). E. coli TR was from AmericanDiagnostica, (Greenwich, Conn.). β-Nicotinamide adenine dinucleotidephosphate, reduced form (NADPH), reduced GSH, glutathione reductase,dithiothreitol, disopropylflurophosphate, aprotinin, N-ethyl maleimide,schiff reagent, salmon testes DNA, and Hoechst dye were all obtainedfrom Sigma Chemical (St. Louis, Mo.). N-acetylcysteine was from FisherScientific (Pittsburgh, Pa.). All other chemicals were of the highestpossible grade.

[0109] Sputum collection. Sputum was obtained from adult and pediatricpatients with CF at National Jewish Medical and Research Center (Denver,Colo.) and the Children's Hospital (Denver, Colo.). Patients werediagnosed with CF if they had sweat chloride values in excess of 60 mMin two separate pilocarpine iontophoresis sweat tests, and exhibited twoallelic CF-producing mutations in subsequent genetic analysis. Allsamples were donated by either spontaneous expectoration or hypertonicsaline induction. Sputum samples containing visibly detectable salivawere discarded. After expectoration, samples were stored at −80° C.until their time of use. Sputum collection protocol, data collection,and consent/assent forms were approved by the Institutional Review Boardof the University of Colorado Health Science Center (COMIRB) andaffiliated hospitals.

[0110] Compaction assay. CF sputum stored at −80° C. was thawed at roomtemperature and aliquoted into 1.5 ml Eppendorf centrifuge tubes atvolumes of 275 μl using a positive displacement pipette (Rainin,Emeryville, Calif.). Sputum samples were subjected to either diluent(H₂O), Trx+TR+NADPH, GSH+glutathione reductase+NADPH, dithiothreitol(DTT) or N-acetylcysteine treatment by the addition of 25 μl of H₂Ocontaining the appropriate molar concentration of each agent. Afterbrief vortexing (˜1 second), sample tubes were loaded onto a microtuberotisserie (Barnstead, Dubuque, Iowa) and incubated at 37° C. for 20minutes. Samples were then processed for compaction assay according tomethodology originated by Daugherty et al. (Daugherty et al.,Biomaterials 16:553-558, 1995). To perform the assay, the contents ofeach sample were loaded into 100 μl glass micro-capillary tubes (FisherScientific) that had been previously welded to 200 μl pipette tips inorder to achieve a tight fit. Three modified capillary tubes were usedto draw up>90% of each sputum sample. Capillary tubes were then removedfrom their pipette tip, sealed with clay, and centrifuged for 10 minutesin a hematocrit centrifuge (IEC, Needham Heights, Mass.), followed bymeasurement of the length in millimeters of the gel (solid) and aqueous(liquid) phases in each tube. The percent liquid fraction of eachcapillary tube was calculated by dividing aqueous phase length by totallength (gel+aqueous)×100. The three measurements of the liquid fraction(%) derived from each sample were then averaged to generate a singlevalue for each treatment condition.

[0111] Magnetic microrheometry. Viscoelastic change in response totreatment was measured by means of a magnetic microrheometer asdeveloped by King (King M., Magnetic microrheometer. In: Methods inBronchial Mucology, edited by Braga P C, and Allegra L. New York: RavenPress, 1988, p. 73-83). An 80-120 μm steel sphere was placed in a 10 mgsputum sample. An electromagnet was used to oscillate this sphere, whoseimage was projected onto a pair of photocells via a microscope. Themucus retarded the motion of the sphere and this effect was revealed byplotting the motion of the sphere against the driving force of themagnet on an oscilloscope, from which G* was measured. G* was themechanical impedance or vector sum of viscosity and elasticity. For Trxand NADPH dose response experiments, log G* at 10 rad/s was measuredbefore any treatment (baseline), and then after 20 minute incubationwith no treatment, diluent (H₂O), or Trx with reducing system. Alltreatments were administered to the sample in a volume of H₂O equal to10% of total sample volume. One measurement was performed per aliquot ofsample.

[0112] Glycoprotein extraction from sputum. Extraction of solubleglycoproteins from sputum was performed according to methodologyoutlined by Davies et al. (Davies and Carlstedt, Methods Mol Biol125:3-13, 2000). 275 μl of CF sputum was treated for 20 minutes at 37°C. with 25 μl of H₂O alone or H₂O containing Trx (10 or 30 μM)+NADPH (2mM) and TR (0.1 μM). After treatment, 100 μl of H₂O containing 1 mMdisopropylflurophosphate and 10 μg ml aprotinin, was added to eachsample, followed by 15 minute centrifugation at 22,000 g at 4° C. Theresulting supernatant (aqueous phase) of each sample was transferred toa new microcentrifuge tube and stored at −20° C. The remaining solid gelportion of each sample was carefully unseated from the tube bottom inthe presence of 250 μl of guanidinium extraction buffer (6 M guanidiniumchloride; 5 mM EDTA; 10 mM sodium phosphate buffer, pH 6.5; 1 mM N-ethylmaleimide; 100 μM disopropylflurophosphate; and 1 μg/ml aprotinin) usinga pipette tip and rotated for 14 hours at 4° C. After centrifugation,the resulting supernatant from this gel phase extraction was thentransferred to a clean tube and frozen at −20° C. until time ofelectrophoresis.

[0113] Analysis of glycoprotein content. The glycoprotein content ofaqueous and gel phase samples were evaluated by staining with periodicacid Schiff reagent (PAS) according to methodology outlined by Thorntonet al. (Thornton et al., Methods Mol Biol 125:77-85, 2000). Aqueous andgel samples were thawed and 80 μl aliquots of each were loaded onto a1.0% agarose gel (150 mm×125 mm) housed within a Biomax horizontalelectrophoresis apparatus (Kodak, Rochester, N.Y.). Electrophoresisreagents were as follows: electrophoresis buffer: 40 mM Tris-acetate, 1mM EDTA, pH 8.0, 0.1% SDS; sample loading buffer: 60% electrophoresisbuffer, 40% glycerol (v/v) and 0.005% (w/v) bromophenol blue. Gelcontents were transferred to polyvinylidene (PVDF) membrane by vacuumblotter (Boeckel Scientific, Feasterville, Pa.) using 0.6 M NaCl, 60 mMsodium citrate as a transfer solution. After transfer, membranes werewashed in three changes of water and transferred to 200 ml of a 1%periodic acid (v/v) 3% acetic acid (v/v) solution for 30 minutes at roomtemperature. The membrane was then rinsed twice with 0.1% sodiummetabsulfite in 1 mM HCl and placed in Schiff reagent for 6 minutes.

[0114] Measurement of total DNA content. 275 μl of CF sputum wasincubated with no treatment, 25 μl of H₂O, or 25 μl of H₂O containingTrx (30 μM)+TR (0.1 μM) and NADPH (2 mM). After 20 minute incubation at37° C., 100 μl of H₂O was added to each sample, followed bycentrifugation (22,000×g) for 10 minutes. Resulting gel and liquidphases were separated and incubated with an equal volume of digestionsolution consisting of 100 mM Tris Cl, 5 mM EDTA, 200 mM NaCl, 0.5%Tween 20, and 1 mg/ml proteinase K for 4 hours at 50° C. DNA waspurified from liquid and gel phases by phenol/chloroform extraction andresuspended in 100 μl of TE buffer, pH 8.0. DNA concentrations weredetermined by Hoechst assay (Labarca and Paigen, Anal Biochem102:344-352,1980) using an F-2000 fluorometer (Hitachi, Schaumburg,Ill.) with an excitation wavelength of 575 nM and an emission wavelengthof 555 nm. Salmon testis DNA, dissolved in TE buffer, was used toestablish the standard curve.

[0115] Statistics. Data in the figures are presented as mean±standarddeviations, except FIGS. 4A and 4B which displays standard error. Alinear mixed-effects modeling approach was used to analyze the effect oftreatments on the liquefaction, viscoelasticity, and DNA solubility ofsputum samples. Dunnet's correction was applied when comparing severaltreatments against a single control. Reproducibility of the compactionassay was assessed via intraclass correlation coefficients calculated inthe linear model. All analyses were performed using SAS version 8.2 (SASInstitute Inc, Cary, N.C.). Significance was defined as p<0.05.

Example 1

[0116] The following example describes the effect of the Trx reducingsystem on release of liquid from CF sputum.

[0117] Due to abnormal ion transport caused by defects in the CFTR gene,airway secretions in CF patients are often desiccated. As a consequence,purulent CF sputum is comprised largely of a rigid and nonflowingbiopolymer matrix, often referred to as gel phase, and lesser amounts ofsoluble, liquid phase. To assess the effect of Trx on the ratios ofthese two phases in sputum, compaction assay measurements wereperformed. In a first experiment, equal volumes of sputum samples weretreated with 25 μl H₂O containing 0, 1, 10, or 30 μM Trx; 0.1 μM TR; and2 mM NADPH (final concentration). After 20 minute incubation, the liquidfraction of each sample was determined by compaction assay.

[0118] The mean (±SD) percentage of CF sputum present in the liquidphase was 3.5±2.9% prior to Trx exposure (FIG. 1A; values are the meanfrom 5 independent experiments. *P<0.05 versus H₂O exposed samples).Aliquots treated with diluent (H₂O) equal to 10% of the sputumdemonstrated a small, nonsignificant increase (6.2±6.6%) in theproportion of sputum present in the liquid phase. In contrast, theliquid phase of CF sputum was significantly increased after treatmentwith the Trx reducing system (Trx+0.1 μM TR, and 2 mM NADPH). Treatmentof sputum with Trx (1 μM) increased the liquid fraction of sputum to37.8±15.4%. Maximal increases in liquid fraction occurred in samplesincubated with a higher Trx (30 μM) concentration (74.5+15.6%).

[0119] To examine the effect of NADPH, additional samples from differentdonors were treated with 30 μM Trx, 0.1 μM TR and either 0, 0.2, 0.6,1.0 or 2 mM NADPH for 20 minutes. Samples treated with Trx and TRwithout NADPH had a low percentage of sputum present in the liquid phase(2.9%+1.3%). Aliquots treated with NADPH demonstrated a dose-dependentincrease in the liquid fraction, with maximal increase occurring at 2 mM(70.55±18.13%) (FIG. 1B). Treatment of sputum with NADPH in the absenceof Trx did not cause any increase in the proportion of sputum present inthe liquid fraction (not shown).

Example 2

[0120] The following example demonstrates the reproducibility ofcompaction assay measurements from Example 1.

[0121] To assess the reproducibility of compaction assay measurements,sputum samples from three different CF donors were separated intoaliquots and frozen. Specifically, freshly isolated CF sputum from threedifferent donors (A, B, C) was separated into 275 μl aliquots andfrozen. After thaw, aliquots were incubated without treatment, or withH₂O, 10 μM Trx (+0.1 μM TR and 2 mM NADPH), or dithiothreitol (DTT, 1 or5 mM) for 20 minutes and the percent liquid measured by compactionassay. Results obtained from three independent experiments performed oneach donor sample were used to evaluate assay reproducibility. On threeconsecutive days, aliquots were thawed, and treated with water, Trx andits reducing system, dithiothreitol (DTT), or no treatment.

[0122] As shown in FIG. 2, aliquots from donor A that had been treatedwith no additions or diluent (H₂O) had a liquid phase fraction of lessthan 10% of their total volume. Treatment of sputum aliquots from donorA with DTT (1 mM or 5 mM), or Trx (30 μM) with reducing system,increased the liquid fraction of these samples to greater than 90% ofthe total sample volume. These percent liquid fraction values of sputumsamples from donor A did not fluctuate to any appreciable degree withidentical treatment upon the second and third determinations insubsequent independent experiments. The extent of changes occurring indonor B and C samples in response to Trx or DTT exposure were lessextensive than those occurring in sputum samples from donor A, but stilldiffered significantly from the controls. For the sample from donor B,the 3 day range of variation in percent of sputum present in the liquidstate after drug treatment was: 1 mM DTT-24-31%; 5 mM DTT-42-57%, 30 μMTrx-46-51%. For sputum from donor C, the range of percent liquid valueswas: 1 mM DTT-57-61%; 5 mM DTT-77-79%, 30 μM Trx-62-81%. These resultsshow that the compaction assay has sufficient intra-samplereproducibility to validate its use as a method for measuringdrug-induced liquefaction in a heterogeneous group of sputum samples.

Example 3

[0123] The following example demonstrates that Trx is a more potentsputum liquefaction agent than glutathione or N-acetylcysteine.

[0124] The effectiveness of Trx in liquefying sputum was compared withother monothiol and dithiol reducing agents. Sputum samples werealiquoted and treated with Trx or GSH for 20 minutes and percent liquiddetermined by compaction assay. Initial compaction assay experimentscompared the potencies of the Trx and GSH reducing systems inliquefaction of sputum in the presence of equimolar concentrations ofNADPH. Compared to control (no additions), a progressive and significantincrease in percent liquid fraction was observed in sputum treated with10, 30, or 60 μM Trx (FIG. 3A). In contrast, a significant increase inthe liquid fraction of sputum was not observed after exposure to GSH atcomparable or higher concentrations up to 1 mM. In separate studies, theuse of N-acetylcysteine across a range of concentrations (FIG. 3B) alsowas observed to be less effective than Trx in causing liquefaction ofsputum. Referring to FIGS. 3A and 3B, the actual percentages shown areas follows: No treatment=2.7+2.3%; H₂O=4.5+2.7%; 10 μM Trx=34.8±6.6%; 30μM Trx=54.6±10.4%; 60 μM Trx=67.0+8.0%; 30 μM GSH=7.8±5.7%; 100 μMGSH=15.9±9.3%; 1 mM GSH=27.6±3.9%. The analysis of Trx and NAC efficacyalso was determined after 20 minute incubation, but on a different setof sputum samples. Values are the mean from 5 (GSH) or 4 (NAC)experiments (* P<0.05 versus no treatment).

Example 4

[0125] The following example shows the effect of Trx reducing system onsputum viscoelasticity.

[0126] Magnetic microrheometry was performed to determine the effect ofTrx and its reducing system on sputum viscosity. Measurements wereperformed on sputum samples before and after incubation with the Trxreducing system (Table 1) to determine the change in log G*(viscoelasticity). TABLE 1 Viscoelasticity data (log G*) of untreated,H₂O, or thioredoxin-exposed CF sputum Treatment None H₂O 3 μM Trx 10 μMTrx 30 μM Trx Before 3.31 ± 3.30 ± 3.37 ± 0.06 3.33 ± 0.06 3.28 ± 0.040.05 0.06 After 3.22 ± 3.20 ± 3.11 ± 0.04 2.94 ± 0.05 2.63 ± 0.04 0.040.03

[0127] In the experiment shown in FIG. 4A, sputum samples were incubatedwith H₂₀ or 3, 10, or 30 μM Trx+0.1 μM TR and 2 mM NADPH for 20 minutesand log G* was determined by magnetic microrheometry. Data is presentedas the difference in log G* measurements recorded before and afterexposure (displayed on the Y-axis). Each column represents themean±standard error for 4 samples (♦ Statistically significant from H₂Odiluent value). Incubation of sputum with diluent (H₂O) for 20 minutes,resulted in a modest decline in log G* (0.11 log units) compared withpretreatment values. Exposure to Trx (3 μM), TR (0.1 μM) and NADPH (2mM) resulted in a significant decrease in the log G* (0.26 log units)compared to diluent treatment alone (FIG. 4A). More substantial declineswere evident in samples exposed to higher concentrations of Trx (0.39log units decreased at 10 μM Trx and 0.65 log units decreased at 30 μMTrx, respectively).

[0128] The effect of varying concentrations of NADPH was also examined(FIG. 4B; change in log G* after incubation with H₂₀ or 10 μM Trx, 0.1μM TR, and 0.2, 0.6 or 2 mM NADPH). Sputum exposed to Trx (30 μM), TR(0.1 μM) and a low concentration of NADPH (0.2 mM) exhibited a modestdecline in viscoelasticity (0.16 log units). A further decline inviscoelasticity occurred with exposure to higher NADPH concentrations,0.6 mM (0.26 log units) and 2 mM (0.39 log units), demonstrating theimportance of provision of reducing equivalents to allow Trx-mediatedreduction in sputum viscoelasticity.

Example 5

[0129] The following example describes the effect of Trx on thesolubility of sputum glycoproteins.

[0130] Disulfide bonds on mucin glycoprotein polymers are potentialtargets for reduction by Trx. To examine the effect of Trx onglycoproteins present in sputum, aliquots of sputum were incubated withH₂O, 10 or 30 μM Trx with its reducing system for 20 minutes andseparated into aqueous (Aq) and gel fractions by centrifugation. Eachinsoluble gel fraction was further treated for 14 hours with guanidinium(G). After treatment, the resulting soluble and insoluble phases of eachsample were separated and analyzed for glycoprotein content by periodicacid/Schiff reagent (PAS) staining. Specifically, fractions were loadedand electrophoresed in a 1% agarose (w/v) gel, transferred to PVDFmembrane, and stained with periodic acid/Schiff reagent as described inmaterials and methods. Referring to FIG. 5, molecular weight standardsare shown in far right lane. Results are representative of threeindependent experiments.

[0131] As shown in FIG. 5, a discrete population of high molecularweight glycoproteins was detected in both the soluble and gel fractionsderived from sputum treated with diluent. In contrast, greater amountsof PAS-reactive glycoproteins were evident in both phases derived fromsputum treated with 10 or 30 μM Trx. During the processing of thesesamples, it was observed that the gel phase matrix from diluent treatedsamples retained a high degree of insolubility, despite overnightguanidinium treatment. This insolubility is the likely reason for thequantitative difference in amounts of glycoprotein observed in gel phaselanes from diluent and Trx-treated sputum. In addition to being moreabundant, a substantial proportion of the glycoforms in Trx-exposedsamples also exhibited greater electrophoretic mobility than thosemoieties present in diluent-treated samples. These findings indicatethat Trx increases the solubility, and reduces the size of glycoproteinpolymers in sputum.

Example 6

[0132] The following example demonstrates the effect of Trx on thesolubility of DNA in sputum.

[0133] The presence of high amounts of extracellular DNA in CF airwaysecretions contributes to the excessive viscoelasticity of CF sputum. Toevaluate what effect Trx has on the solubility of DNA in sputum, sputumsamples (275 μL) were incubated with either no additions, diluent (H₂O),or Trx (30 μM)+reducing system for 20 minutes, and then separated intogel (insoluble) and liquid (soluble) phases. Measurement of DNA contentby Hoechst assay revealed that most of the DNA present in the untreatedsamples was retained in the gel phase (gel=0.94±0.26 mg;liquid=0.05±0.03 mg) (FIG. 6). Diluent-treated samples demonstrated amodest increase in mean DNA content in their liquid phase (gel=0.80±0.24mg; liquid=0.21±0.23 mg). With Trx treatment, a further shift in DNAfrom gel to liquid phase (gel=0.55+0.31 mg; liquid=0.57+0.37 mg) wasobserved. Referring to FIG. 6, shown are mean DNA content+S. D. fromeach fraction (n=5 experiments) (*P<0.05 versus no treatment solublephase).

Example 7

[0134] The following example describes the treatment of a patient thathas excessively viscous or cohesive mucus or sputum with the therapeuticcomposition of the invention.

[0135] A 4 month old female patient presents with poor weight; frequent,bulky, foul-smelling, oily stools; a protruding abdomen and recurrentcoughing and wheezing. The patient undergoes a quantitative pilocarpineiontophoresis sweat test and is diagnosed with cystic fibrosis.Pulmonary function tests and a chest X-ray confirm the diagnosis. Thepatient undergoes periodic evaluation and therapy including preventionand treatment of lung problems as they occur, good nutrition, andphysical activity. By age 13, the patient displays slowed growth,delayed puberty, and declining physical endurance, and frequentlysuffers from lung infections, labored breathing and gastrointestinaldiscomfort. The patient presents at the physician's office with a severecough, wheezing and impaired lung function.

[0136] A compaction assay is performed on a sample of sputum collectedfrom the airway of the patient and it is determined based on this assayand the prior diagnosis of cystic fibrosis that the patient is sufferingfrom respiratory dysfunction due to excessively viscous and cohesivemucus in the airways. To treat this symptom in the lung, the patient isadministered a composition comprising about 2.5 mg per dosing unit ofhuman thioredoxin and a dose of NAPDH sufficient to achieve about 5 μMachieved surface concentration in a surfactant by aerosol delivery. Thepatient is monitored subsequently by additional compaction assays forincreased liquefaction of the sputum and by lung function testing forclearing of the airways. Subsequent doses of the composition asdescribed above are administered by aerosol on a daily basis until thepatient airways show a significant clearance and the patient symptomsand general health have improved.

[0137] Each of the publications and other references discussed or citedherein is incorporated herein by reference in its entirety.

[0138] While various embodiments of the present invention have beendescribed in detail, it is apparent that modifications and adaptationsof those embodiments will occur to those skilled in the art. It is to beexpressly understood, however, that such modifications and adaptationsare within the scope of the present invention, as set forth in thefollowing claims.

1 15 1 4 PRT Artificial sequence synthetic peptide motif 1 Cys Gly ProCys 1 2 6 PRT Artificial sequence synthetic peptide motif 2 Xaa Cys GlyPro Cys Xaa 1 5 3 6 PRT Artificial sequence synthetic peptide motif 3Trp Cys Gly Pro Cys Lys 1 5 4 109 PRT Pseudomonas syringae 4 Met Ser AsnAsp Leu Ile Lys His Val Thr Asp Ala Ser Phe Glu Ala 1 5 10 15 Asp ValLeu Lys Ala Asp Gly Ala Val Leu Val Asp Tyr Trp Ala Glu 20 25 30 Trp CysGly Pro Cys Lys Met Ile Ala Pro Val Leu Asp Glu Ile Ala 35 40 45 Thr ThrTyr Ala Gly Lys Leu Thr Ile Ala Lys Leu Asn Ile Asp Glu 50 55 60 Asn GlnGlu Thr Pro Ala Lys His Gly Val Arg Gly Ile Pro Thr Leu 65 70 75 80 MetLeu Phe Lys Asn Gly Asn Val Glu Ala Thr Lys Val Gly Ala Leu 85 90 95 SerLys Ser Gln Leu Ala Ala Phe Leu Asp Ala Asn Ile 100 105 5 104 PRTPorphyromonas gingivalis 5 Met Ala Leu Gln Ile Thr Asp Ala Thr Phe AspGly Leu Val Ala Glu 1 5 10 15 Gly Lys Pro Met Val Val Asp Phe Trp AlaThr Trp Cys Gly Pro Cys 20 25 30 Arg Met Val Gly Pro Ile Ile Asp Glu LeuAla Ala Glu Tyr Glu Gly 35 40 45 Arg Ala Ile Ile Gly Lys Val Asp Val AspAla Asn Thr Glu Leu Pro 50 55 60 Met Lys Tyr Gly Val Arg Asn Ile Pro ThrIle Leu Phe Ile Lys Asn 65 70 75 80 Gly Glu Val Val Lys Lys Leu Val GlyAla Gln Ser Lys Asp Val Phe 85 90 95 Lys Lys Glu Leu Asp Ala Leu Phe 1006 103 PRT Listeria monocytogenes 6 Met Val Lys Glu Ile Thr Asp Ala ThrPhe Glu Gln Glu Thr Ser Glu 1 5 10 15 Gly Leu Val Leu Thr Asp Phe TrpAla Thr Trp Cys Gly Pro Cys Arg 20 25 30 Met Val Ala Pro Val Leu Glu GluIle Gln Glu Glu Arg Gly Glu Ala 35 40 45 Leu Lys Ile Val Lys Met Asp ValAsp Glu Asn Pro Glu Thr Pro Gly 50 55 60 Ser Phe Gly Val Met Ser Ile ProThr Leu Leu Ile Lys Lys Asp Gly 65 70 75 80 Glu Val Val Glu Thr Ile IleGly Tyr Arg Pro Lys Glu Glu Leu Asp 85 90 95 Glu Val Ile Asn Lys Tyr Val100 7 103 PRT Saccharomyces cerevisiae 7 Met Val Thr Gln Phe Lys Thr AlaSer Glu Phe Asp Ser Ala Ile Ala 1 5 10 15 Gln Asp Lys Leu Val Val ValAsp Phe Tyr Ala Thr Trp Cys Gly Pro 20 25 30 Cys Lys Met Ile Ala Pro MetIle Glu Lys Phe Ser Glu Gln Tyr Pro 35 40 45 Gln Ala Asp Phe Tyr Lys LeuAsp Val Asp Glu Leu Gly Asp Val Ala 50 55 60 Gln Lys Asn Glu Val Ser AlaMet Pro Thr Leu Leu Leu Phe Lys Asn 65 70 75 80 Gly Lys Glu Val Ala LysVal Val Gly Ala Asn Pro Ala Ala Ile Lys 85 90 95 Gln Ala Ile Ala Ala AsnAla 100 8 105 PRT Gallus gallus 8 Met Val Lys Ser Val Gly Asn Leu AlaAsp Phe Glu Ala Glu Leu Lys 1 5 10 15 Ala Ala Gly Glu Lys Leu Val ValVal Asp Phe Ser Ala Thr Trp Cys 20 25 30 Gly Pro Cys Lys Met Ile Lys ProPhe Phe His Ser Leu Cys Asp Lys 35 40 45 Phe Gly Asp Val Val Phe Ile GluIle Asp Val Asp Asp Ala Gln Asp 50 55 60 Val Ala Thr His Cys Asp Val LysCys Met Pro Thr Phe Gln Phe Tyr 65 70 75 80 Lys Asn Gly Lys Lys Val GlnGlu Phe Ser Gly Ala Asn Lys Glu Lys 85 90 95 Leu Glu Glu Thr Ile Lys SerLeu Val 100 105 9 105 PRT Mus musculus 9 Met Val Lys Leu Ile Glu Ser LysGlu Ala Phe Gln Glu Ala Leu Ala 1 5 10 15 Ala Ala Gly Asp Lys Leu ValVal Val Asp Phe Ser Ala Thr Trp Cys 20 25 30 Gly Pro Cys Lys Met Ile LysPro Phe Phe His Ser Leu Cys Asp Lys 35 40 45 Tyr Ser Asn Val Val Phe LeuGlu Val Asp Val Asp Asp Cys Gln Asp 50 55 60 Val Ala Ala Asp Cys Glu ValLys Cys Met Pro Thr Phe Gln Phe Tyr 65 70 75 80 Lys Lys Gly Gln Lys ValGly Glu Phe Ser Gly Ala Asn Lys Glu Lys 85 90 95 Leu Glu Ala Ser Ile ThrGlu Tyr Ala 100 105 10 105 PRT Rattus norvegicus 10 Met Val Lys Leu IleGlu Ser Lys Glu Ala Phe Gln Glu Ala Leu Ala 1 5 10 15 Ala Ala Gly AspLys Leu Val Val Val Asp Phe Ser Ala Thr Trp Cys 20 25 30 Gly Pro Cys LysMet Ile Lys Pro Phe Phe His Ser Leu Cys Asp Lys 35 40 45 Tyr Ser Asn ValVal Phe Leu Glu Val Asp Val Asp Asp Cys Gln Asp 50 55 60 Val Ala Ala AspCys Glu Val Lys Cys Met Pro Thr Phe Gln Phe Tyr 65 70 75 80 Lys Lys GlyGln Lys Val Gly Glu Phe Ser Gly Ala Asn Lys Glu Lys 85 90 95 Leu Glu AlaThr Ile Thr Glu Phe Ala 100 105 11 105 PRT Bos taurus 11 Met Val Lys GlnIle Glu Ser Lys Tyr Ala Phe Gln Glu Ala Leu Asn 1 5 10 15 Ser Ala GlyGlu Lys Leu Val Val Val Asp Phe Ser Ala Thr Trp Cys 20 25 30 Gly Pro CysLys Met Ile Lys Pro Phe Phe His Ser Leu Ser Glu Lys 35 40 45 Tyr Ser AsnVal Val Phe Leu Glu Val Asp Val Asp Asp Cys Gln Asp 50 55 60 Val Ala AlaGlu Cys Glu Val Lys Cys Met Pro Thr Phe Gln Phe Phe 65 70 75 80 Lys LysGly Gln Lys Val Gly Glu Phe Ser Gly Ala Asn Lys Glu Lys 85 90 95 Leu GluAla Thr Ile Asn Glu Leu Ile 100 105 12 105 PRT Homo sapiens 12 Met ValLys Gln Ile Glu Ser Lys Thr Ala Phe Gln Glu Ala Leu Asp 1 5 10 15 AlaAla Gly Asp Lys Leu Val Val Val Asp Phe Ser Ala Thr Trp Cys 20 25 30 GlyPro Cys Lys Met Ile Lys Pro Phe Phe His Ser Leu Ser Glu Lys 35 40 45 TyrSer Asn Val Ile Phe Leu Glu Val Asp Val Asp Asp Cys Gln Asp 50 55 60 ValAla Ser Glu Cys Glu Val Lys Cys Met Pro Thr Phe Gln Phe Phe 65 70 75 80Lys Lys Gly Gln Lys Val Gly Glu Phe Ser Gly Ala Asn Lys Glu Lys 85 90 95Leu Glu Ala Thr Ile Asn Glu Leu Val 100 105 13 134 PRT Arabidopsisthaliana 13 Met Gly Gly Ala Leu Ser Thr Val Phe Gly Ser Gly Glu Asp AlaAla 1 5 10 15 Ala Ala Gly Thr Glu Ser Ser Glu Pro Ser Arg Val Leu LysPhe Ser 20 25 30 Ser Ser Ala Arg Trp Gln Leu His Phe Asn Glu Ile Lys GluSer Asn 35 40 45 Lys Leu Leu Val Val Asp Phe Ser Ala Ser Trp Cys Gly ProCys Arg 50 55 60 Met Ile Glu Pro Ala Ile His Ala Met Ala Asp Lys Phe AsnAsp Val 65 70 75 80 Asp Phe Val Lys Leu Asp Val Asp Glu Leu Pro Asp ValAla Lys Glu 85 90 95 Phe Asn Val Thr Ala Met Pro Thr Phe Val Leu Val LysArg Gly Lys 100 105 110 Glu Ile Glu Arg Ile Ile Gly Ala Lys Lys Asp GluLeu Glu Lys Lys 115 120 125 Val Ser Lys Leu Arg Ala 130 14 167 PRT Zeamays 14 Met Ala Met Glu Thr Cys Phe Arg Ala Trp Ala Leu His Ala Pro Ala1 5 10 15 Gly Ser Lys Asp Arg Leu Leu Val Gly Asn Leu Val Leu Pro SerLys 20 25 30 Arg Ala Leu Ala Pro Leu Ser Val Gly Arg Val Ala Thr Arg ArgPro 35 40 45 Arg His Val Cys Gln Ser Lys Asn Ala Val Asp Glu Val Val ValAla 50 55 60 Asp Glu Lys Asn Trp Asp Gly Leu Val Met Ala Cys Glu Thr ProVal 65 70 75 80 Leu Val Glu Phe Trp Ala Pro Trp Cys Gly Pro Cys Arg MetIle Ala 85 90 95 Pro Val Ile Asp Glu Leu Ala Lys Asp Tyr Ala Gly Lys IleThr Cys 100 105 110 Cys Lys Val Asn Thr Asp Asp Ser Pro Asn Val Ala SerThr Tyr Gly 115 120 125 Ile Arg Ser Ile Pro Thr Val Leu Ile Phe Lys GlyGly Glu Lys Lys 130 135 140 Glu Ser Val Ile Gly Ala Val Pro Lys Ser ThrLeu Thr Thr Leu Ile 145 150 155 160 Asp Lys Tyr Ile Gly Ser Ser 165 15172 PRT Oryza sativa 15 Met Ala Leu Glu Thr Cys Phe Arg Ala Trp Ala ThrLeu His Ala Pro 1 5 10 15 Gln Pro Pro Ser Ser Gly Gly Ser Arg Asp ArgLeu Leu Leu Ser Gly 20 25 30 Ala Gly Ser Ser Gln Ser Lys Pro Arg Leu SerVal Ala Ser Pro Ser 35 40 45 Pro Leu Arg Pro Ala Ser Arg Phe Ala Cys GlnCys Ser Asn Val Val 50 55 60 Asp Glu Val Val Val Ala Asp Glu Lys Asn TrpAsp Ser Met Val Leu 65 70 75 80 Gly Ser Glu Ala Pro Val Leu Val Glu PheTrp Ala Pro Trp Cys Gly 85 90 95 Pro Cys Arg Met Ile Ala Pro Val Ile AspGlu Leu Ala Lys Glu Tyr 100 105 110 Val Gly Lys Ile Lys Cys Cys Lys ValAsn Thr Asp Asp Ser Pro Asn 115 120 125 Ile Ala Thr Asn Tyr Gly Ile ArgSer Ile Pro Thr Val Leu Met Phe 130 135 140 Lys Asn Gly Glu Lys Lys GluSer Val Ile Gly Ala Val Pro Lys Thr 145 150 155 160 Thr Leu Ala Thr IleIle Asp Lys Tyr Val Ser Ser 165 170

What is claimed is:
 1. A method to increase the liquefaction of mucus orsputum in a patient that has excessively viscous or cohesive mucus orsputum, comprising contacting the mucus or sputum of the patient with acomposition comprising a protein or peptide containing a thioredoxinactive-site in reduced state effective to increase the liquefaction ofthe mucus or sputum as compared to prior to the step of contacting. 2.The method of claim 1, wherein the patient has a lung disease in whichabnormal or excessive viscosity or cohesiveness of mucus or sputum is asymptom or cause of the disease.
 3. The method of claim 1, wherein thepatient has cystic fibrosis.
 4. The method of claim 1, wherein the stepof contacting the mucus or sputum of the patient with the composition isperformed by introducing the composition to the patient by a routeselected from the group consisting of nasal, intratracheal, bronchial,direct installation into the lung and inhaled.
 5. The method of claim 1,wherein the mucus or sputum to be contacted is located in therespiratory tract, the gastrointestinal tract or the reproductive tractof the patient.
 6. The method of claim 1, wherein the composition isadministered to the patient in a pharmaceutically acceptable carrier. 7.The method of claim 1, wherein the protein or peptide is administered tothe patient in an amount that is between about 1.5 mmoles/kg weight ofthe patient and about 150 mmoles/kg weight of the patient.
 8. The methodof claim 1, wherein the protein has a half-life in the patient ofbetween about 5 minutes and about 24 hours.
 9. The method of claim 1,wherein a liquid phase of a total volume of a sample of mucus or sputumfrom the patient shows a statistically significant increase afteradministration of the composition.
 10. The method of claim 1, whereinthe thioredoxin active-site comprises the amino acid sequence C-X-X-C,wherein C residues are in reduced state, and wherein X residues are anyamino acid residue.
 11. The method of claim 1, wherein the thioredoxinactive-site comprises the amino acid sequence X-C-X-X-C-X, wherein Cresidues are in reduced state, and wherein X residues are any amino acidresidue.
 12. The method of claim 1, wherein the thioredoxin active-sitecomprises the amino acid sequence X-C-G-P-C-X (SEQ ID NO:2), wherein Cresidues are in reduced state, and wherein X residues are any amino acidresidue.
 13. The method of claim 1, wherein the thioredoxin active-sitecomprises the amino acid sequence W-C-G-P-C-K (SEQ ID NO:3), wherein Cresidues are in reduced state.
 14. The method of claim 1, wherein theprotein comprises thioredoxin selected from the group consisting ofprokaryotic thioredoxin, yeast thioredoxin, plant thioredoxin, andmammalian thioredoxin.
 15. The method of claim 1, wherein the proteincomprises human thioredoxin.
 16. The method of claim 1, wherein thecomposition further comprises nicotinamide-adenine dinucleotidephosphate (reduced form) (NADPH) for reducing the thioredoxin activesite of the protein.
 17. The method of claim 16, wherein the compositionfurther comprises thioredoxin reductase.
 18. A composition for use inthe liquefaction of mucus or sputum, comprising a protein or peptidecontaining a thioredoxin active-site in reduced state and at least oneadditional agent for treatment of excessively viscous or cohesive mucusor sputum.
 19. The composition of claim 18, wherein the thioredoxinactive-site comprises the amino acid sequence X-C-X-X-C-X, wherein Cresidues are in reduced state, and wherein the X residues are any aminoacid residue.
 20. The composition of claim 18, wherein the thioredoxinactive-site comprises the amino acid sequence X-C-G-P-C-X (SEQ ID NO:2),wherein C residues are in reduced state, and wherein the X residues areany amino acid residue.
 21. The composition of claim 18, wherein thethioredoxin active-site comprises the amino acid sequence W-C-G-P-C-K(SEQ ID NO:3), wherein C residues are in reduced state.
 22. Thecomposition of claim 18, wherein the protein comprises thioredoxinselected from a group consisting of prokaryotic thioredoxin, yeastthioredoxin, plant thioredoxin, and mammalian thioredoxin.
 23. Thecomposition of claim 18, wherein the protein comprises humanthioredoxin.
 24. The composition of claim 18, wherein the compositionfurther comprises nicotinamide-adenine dinucleotide phosphate (reducedform) (NADPH).
 25. The composition of claim 24, wherein the compositionfurther comprises thioredoxin reductase.
 26. A method to increase theliquefaction of mucus or sputum in a patient that has excessivelyviscous or cohesive mucus or sputum, comprising contacting the mucus orsputum in the respiratory tract of the patient with a compositioncomprising a protein comprising the amino acid sequence X-C-X-X-C-X,wherein C residues are in reduced state, wherein the contact ofcomposition increases the volume of the liquid phase in a sample ofmucus or sputum from the patient as compared to prior to contact withthe composition.